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329452891968520192 May 1 00:31 @erlichya I am planning to ride from Boston to CSHL on Sunday night. Anyone wants to join? #bog13 #1000genomes
329567607210532864 May 1 08:06 @dgmacarthur OK, time to get a clear consensus on the CSHL Biology of Genomes hashtag. We all happy with #bog13? Other variants: #bog2013, #bg2013.
329586557055016961 May 1 09:22 @mike_schatz @dgmacarthur I vote for #bog13. It also has the most traffic so far
329590230493560833 May 1 09:36 @evolvability +1 RT @mike_schatz: @dgmacarthur: I vote for #bog13. It also has the most traffic so far
329595240115757057 May 1 09:56 @girlscientist @evolvability @mike_schatz @dgmacarthur totally #bog13.
329595376359325696 May 1 09:57 @evolvability RT @girlscientist: @evolvability @mike_schatz @dgmacarthur totally #bog13.
329603511958523904 May 1 10:29 @obahcall @girlscientist @evolvability @mike_schatz @dgmacarthur +1 for #bog13. Excitedly awaiting abstract book any time now...
329618696635047936 May 1 11:29 @dgmacarthur Great, we have consensus on #bog13 as hashtag for next week. For those who can't make it, it will be webcast ($195): https://meetings.cshl.edu/leadingstrand_registration.asp
329621183177834497 May 1 11:39 @SahaSurya RT @dgmacarthur: Great, we have consensus on #bog13 as hashtag for next week. For those who can't make it, it will be webcast ($195): https://t.co/NZVG5511kS
329622513858523136 May 1 11:45 @nextgenseek RT @dgmacarthur: Great, we have consensus on #bog13 as hashtag for next week. For those who can't make it, it will be webcast ($195): https://t.co/NZVG5511kS
329651247428800514 May 1 13:39 @konrad_jk @obahcall @girlscientist @evolvability @mike_schatz @dgmacarthur +1 more for #bog13 . Excited!
329651790259843074 May 1 13:41 @bryan_howie @dgmacarthur @aylwyn_scally The week before #bog13 is the perfect time to start a #YourMommasGenomeSoFat hash tag.
329652777921949696 May 1 13:45 @dgmacarthur RT @bryan_howie: @dgmacarthur @aylwyn_scally The week before #bog13 is the perfect time to start a #YourMommasGenomeSoFat hash tag.
329654460538298368 May 1 13:52 @Graham_Coop RT @bryan_howie: @dgmacarthur @aylwyn_scally The week before #bog13 is the perfect time to start a #YourMommasGenomeSoFat hash tag.
329699516892712960 May 1 16:51 @yuorme RT @bryan_howie: @dgmacarthur @aylwyn_scally The week before #bog13 is the perfect time to start a #YourMommasGenomeSoFat hash tag.
329709363092672512 May 1 17:30 @BlueSEQ @dgmacarthur $195 for webcast? How much to follow via twitter? ;-) #bog13
329709527735873537 May 1 17:30 @cshperspectives It's that time of year again: when all the British genomics tweeps snigger at the Biology of Genomes meeting hashtag #bog13
329956535830716416 May 2 09:52 @OmicsOmicsBlog Very nice of @bionanogenomic_ to include a WDB Streptomyces genome on their #bog13 poster (plus me as author!)
330074185734946818 May 2 17:39 @konrad_jk Will have a few copies of Exploring Personal Genomics (http://www.exploringpersonalgenomics.org) for sale at #bog13 . Find me if you want one!
330087676650856448 May 2 18:33 @notSoJunkDNA RT @konrad_jk: Will have a few copies of Exploring Personal Genomics (http://www.exploringpersonalgenomics.org) for sale at #bog13 . Find me if you want one!
330088307289620480 May 2 18:35 @evolvability RT @konrad_jk: Will have a few copies of Exploring Personal Genomics (http://www.exploringpersonalgenomics.org) for sale at #bog13 . Find me if you want one!
330089359049113600 May 2 18:40 @DNADigest RT @konrad_jk: Will have a few copies of Exploring Personal Genomics (http://www.exploringpersonalgenomics.org) for sale at #bog13 . Find me if you want one!
330123016086364160 May 2 20:53 @mgymrek off to Pittsburgh tomorrow to visit @dbetser and for fun half marathon, then off to #1000genomes and #bog13 !
330242727042244608 May 3 04:49 @konrad_jk Making a #bog13 specific #bingo card! Suggestions for new, flashy terms welcome.
330396487634804736 May 3 15:00 @notSoJunkDNA Are we gonna get the program for #BOG13 before the weekend? (or am I the only one who didn't received it?)
330436641955135489 May 3 17:40 @gtyrelle RT @dgmacarthur: Great, we have consensus on #bog13 as hashtag for next week. For those who can't make it, it will be webcast ($195): https://t.co/NZVG5511kS
330438749077008385 May 3 17:48 @girlscientist YoMammasGenome, incidental, diagnostic odyssey RT @konrad_jk: Making a #bog13 specific #bingo card! Suggestions for new...terms welcome.
330439079793668096 May 3 17:49 @girlscientist Should there be a special prize for the person who can work in #YoMammasGenomeSoFat into a #bog13 talk?
330475782461865984 May 3 20:15 @Staypuffy RT @dgmacarthur: Great, we have consensus on #bog13 as hashtag for next week. For those who can't make it, it will be webcast ($195): https://t.co/NZVG5511kS
330490231117721600 May 3 21:13 @bullymom2 I'm guessing not. MT @notSoJunkDNA: Are we gonna get the program for #BOG13 before the weekend?
330590246964170753 May 4 03:50 @notSoJunkDNA All I needed to know! Thanks. #bog13 RT @GuyHorev: @notSoJunkDNA wednesday afternoon wine and cheese.
330755772529115137 May 4 14:48 @konrad_jk RT @girlscientist: Should there be a special prize for the person who can work in #YoMammasGenomeSoFat into a #bog13 talk?
330816096758272000 May 4 18:47 @erlichya Attending #bog13 or #1000Genomes? http://bit.ly/13e00gN Check these 5 restaurants in the CSHL area.
330820623079190532 May 4 19:05 @mike_schatz @erlichya great list. I would add Red (Italian american), Honu (cocktails and bistro), Nisen (sushi), and Prime (steaks and seafood) #bog13
331024736769425408 May 5 08:37 @cshperspectives RT @erlichya: Attending #bog13 or #1000Genomes? http://bit.ly/13e00gN Check these 5 restaurants in the CSHL area.
331071542257651713 May 5 11:43 @Magda_Skipper MT @erlichya Some useful recommendations for #bog13 Note suggestions 4 and 5 :-) http://erlichya.tumblr.com/post/49629273173/my-top-five-resturants-in-cshl-area
331074062795304961 May 5 11:53 @tuuliel Off to #CSHL for #1000Genomes and #bog13!
331160040612458497 May 5 17:34 @evgenykvon Just arrived at New York City. As awesome as always. Looking forward for #CSHL and #bog13!
331180620287975426 May 5 18:56 @erlichya On my way to Cold Spring Harbor Lab. Looking forward for a great week! #bog13
331183920429285376 May 5 19:09 @evolvability RT @erlichya: On my way to Cold Spring Harbor Lab. Looking forward for a great week! #bog13
331184048053559296 May 5 19:10 @evolvability @erlichya see u in the morning! #bog13
331196886306406401 May 5 20:01 @MickeyAtwal "We're gonna need a bigger boat". Getting ready for the annual invasion of attendees at The Biology of Genomes meeting, CSHL. #bog13
331232386824146944 May 5 22:22 @vezzi84 RT @erlichya: Attending #bog13 or #1000Genomes? http://bit.ly/13e00gN Check these 5 restaurants in the CSHL area.
331235128460316674 May 5 22:33 @tuuliel RT @konrad_jk: Making a #bog13 specific #bingo card! Suggestions for new, flashy terms welcome.
331235823758487553 May 5 22:35 @tuuliel RT @dgmacarthur: Great, we have consensus on #bog13 as hashtag for next week. For those who can't make it, it will be webcast ($195): https://t.co/NZVG5511kS
331237556958162944 May 5 22:42 @vezzi84 in NY for #bog13 presenting poster on norway spruce genome assembly
331251008514686976 May 5 23:36 @erlichya Dear CSHL, motel 6 looks like a resort compared to your rooms. The 17th century is on the phone asking for the settlers houses back. #bog13
331269101966213121 May 6 00:48 @arvestad RT @vezzi84: in NY for #bog13 presenting poster on norway spruce genome assembly
331384190362845184 May 6 08:25 @robin_andersson Getting up 4AM tomorrow for flight to NY and #bog13. First session starts 21.5 hrs later in which I am giving a talk. Looking fwd to it!
331390315565031426 May 6 08:49 @joe_pickrell Talking on Saturday morning at #bog13. I assume there will be an IV coffee drip available underneath the podium?
331397285718130689 May 6 09:17 @amythewilliams .@joe_pickrell also talking on Saturday at #bog13 - 2nd to last. Hope people stay to hear about gene conversion rates and localization
331402528342278144 May 6 09:38 @erlichya .@NEdgingtonPhD looks to me more like we are Pyongyang philosophy if you know what I mean... #bog13
331418064631496705 May 6 10:39 @girlscientist @erlichya hey man, if you got a room on campus you should stop complaining! Those ppl on the shuttle would love to be in your cabin…. #bog13
331426878432878592 May 6 11:15 @cshlmeetings Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331427220595810305 May 6 11:16 @obahcall RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331428038711590912 May 6 11:19 @Graham_Coop RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331429793625169921 May 6 11:26 @obahcall @joe_pickrell @tuuliel @amythewilliams same schedule this year- holding the best of #popgen to keep us inspired through the close #bog13
331433578682515457 May 6 11:41 @Chris_Evelo RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331434425743196161 May 6 11:44 @ryan_e_mills First time staying in Blackford Hall; not sure if the proximity to the food and bar is a good thing or a bad thing. #bog13
331435526974488577 May 6 11:49 @robin_andersson RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331435800518602752 May 6 11:50 @ewanbirney Getting ready for the schlep across the pond for biology of genomes 2013 (#bog13). This is my favourite meeting of the year.
331436899979890688 May 6 11:54 @ewanbirney Mixture of short, timely talks, good questions, and chats at the bar and at posters. What's not to like :) #bog13
331440145742053377 May 6 12:07 @tuuliel RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331468375626756096 May 6 13:59 @amfoes RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331504969066881025 May 6 16:25 @leonidkruglyak Just in case I forget to star it, my #bog13 talk Friday morning is tweetable.
331505607700004865 May 6 16:27 @deannachurch And, as I see the early stream of #bog13 tweets come through, I'm becoming more depressed about not being there. #sequestered
331505681435873281 May 6 16:28 @Erika_Check woo hoo! looking fwd to this tweetstream RT @leonidkruglyak: my #bog13 talk Friday morning is tweetable.
331505760871780353 May 6 16:28 @Erika_Check RT @deannachurch: And, as I see the early stream of #bog13 tweets come through, I'm becoming more depressed about not being there. #sequestered
331505982335238144 May 6 16:29 @notSoJunkDNA Reading the program for #BOG13. Obviously excited by "Historical revision of the genome of Louis XVI (1754-1793)" by Carles Lalueza-Fox
331506294257221632 May 6 16:30 @HopeJahren Even puppy dogs wish they were at #bog13 MT @deannachurch [avatar] becoming more depressed about not being there.
331506999634305024 May 6 16:33 @hyphaltip RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331509485526974465 May 6 16:43 @notSoJunkDNA All excited by the #BOG13 program. But that cover, all in #ComicSans??? Makes me cry….
331510143617495040 May 6 16:45 @larry_parnell Yes, @deannachurch there may indeed be fewer .gov email addresses in #bog13 participants list this year. I'm doing the live video feed.
331511948959158273 May 6 16:53 @lexnederbragt Care to share the poster? RT @vezzi84: in NY for #bog13 presenting poster on norway spruce genome assembly
331515116044566528 May 6 17:05 @nparmalee RT @leonidkruglyak: Just in case I forget to star it, my #bog13 talk Friday morning is tweetable.
331527459465994240 May 6 17:54 @erlichya Having an STR group meeting at House of Dosas. #bog13 http://t.co/YmaKUlGEPu
331528192571625473 May 6 17:57 @girlscientist . @obahcall what time is #bog13 yoga and/or meditation?
331531203444355072 May 6 18:09 @julponchart RT @lexnederbragt: Care to share the poster? RT @vezzi84: in NY for #bog13 presenting poster on norway spruce genome assembly
331533450005839873 May 6 18:18 @assemblathon RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331539271943086080 May 6 18:41 @NeuroMinded wish i was going to @CSHLaboratory for #bog13 but too many genes and not enough brains involved to have @NatureNeuro pay my way
331546060671574016 May 6 19:08 @dgmacarthur Conference tweeting tip #11: just before a major conference, fill your feed with inanity to dissuade any potential new followers. #bog13
331546923188232192 May 6 19:12 @michaelhoffman Brace yourselves. The #bog13 tweets are coming. http://memegenerator.net/instance/37587957
331551904578547712 May 6 19:31 @cshlmeetings RT @michaelhoffman: Brace yourselves. The #bog13 tweets are coming. http://memegenerator.net/instance/37587957
331551931812163585 May 6 19:31 @cshlmeetings RT @ewanbirney: Mixture of short, timely talks, good questions, and chats at the bar and at posters. What's not to like :) #bog13
331552061604904961 May 6 19:32 @mgymrek attending #bog13 and looking for morning trail running buddies? let me know!
331552413460865025 May 6 19:33 @realscientists . @leonidkruglyak Here you go: http://cheezburger.com/7432907008 #bog13
331554317007982592 May 6 19:41 @dgmacarthur RT @michaelhoffman: Brace yourselves. The #bog13 tweets are coming. http://t.co/8xrzAwHcOQ
331556048253108224 May 6 19:48 @notSoJunkDNA RT @michaelhoffman: Brace yourselves. The #bog13 tweets are coming. http://memegenerator.net/instance/37587957
331557834858840066 May 6 19:55 @FNavarroBioInfo I can't believe it. Most of the guys I follow at twitter are also going to #bog13 @notSoJunkDNA @michaelhoffman @dgmacarthur awesome!
331559538950025217 May 6 20:02 @drbachinsky RT @assemblathon: RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://t.co/eidIVrJgc4
331560450263232512 May 6 20:05 @michaelhoffman I am not going to be at #bog13 but I am looking forward to the tweets!
331570005047119874 May 6 20:43 @joe_pickrell RT @dgmacarthur: RT @michaelhoffman: Brace yourselves. The #bog13 tweets are coming. http://t.co/8xrzAwHcOQ
331571814859943937 May 6 20:50 @DNAmlin RT @michaelhoffman: I am not going to be at #bog13 but I am looking forward to the tweets!
331584133534990337 May 6 21:39 @Genome10K RT @assemblathon: RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://t.co/eidIVrJgc4
331589567306145793 May 6 22:01 @pop_gen_JED .@michaelhoffman Me too. Need to decide whether or not to pony up the $200 for online #bog13.
331591076777439234 May 6 22:07 @pop_gen_JED RT @michaelhoffman: Brace yourselves. The #bog13 tweets are coming. http://memegenerator.net/instance/37587957
331645987351314432 May 7 01:45 @RobAboukhalil RT @michaelhoffman: Brace yourselves. The #bog13 tweets are coming. http://memegenerator.net/instance/37587957
331646369737621504 May 7 01:47 @ewanbirney RT @michaelhoffman: I am not going to be at #bog13 but I am looking forward to the tweets!
331689253048303616 May 7 04:37 @GB_Naomi Will sadly be attending #bog13 on Twitter only (place nixed by GB's Editor Clare). Any plans to live tweet the yoga session @obahcall?
331699286213550080 May 7 05:17 @nextgenseek 2013 The Biology of Genomes Starts Today http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/ #bog13 http://t.co/HmFxevCFiB
331699667995852800 May 7 05:18 @razibkhan RT @nextgenseek: 2013 The Biology of Genomes Starts Today http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/ #bog13 http://t.co/HmFxevCFiB
331707823002095616 May 7 05:51 @GenomeBiology Look out for Genome Biology's Editor, Clare Garvey, at @CSHLmeetings' #bog13 this week
331721886780231680 May 7 06:47 @malinoj RT @michaelhoffman: I am not going to be at #bog13 but I am looking forward to the tweets!
331727134500470784 May 7 07:08 @SeqComplete RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
331730580746153984 May 7 07:21 @GholsonLyon Cool, the HTML and PDF version of our recent paper on variant calling went live, just ahead of #BOG13. :) http://genomemedicine.com/content/5/3/28
331731026206392320 May 7 07:23 @duffeleanor RT @nextgenseek: 2013 The Biology of Genomes Starts Today http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/ #bog13 http://t.co/HmFxevCFiB
331731564864090112 May 7 07:25 @DaleYuzuki RT @deannachurch: As I see the early stream of #bog13 tweets come through, I'm becoming more depressed about not being there. #sequestered
331734920449884160 May 7 07:39 @JasonORawe RT @GholsonLyon: Cool, the HTML and PDF version of our recent paper on variant calling went live, just ahead of #BOG13. :) http://t.co/0G34wOMo9c
331739246094331905 May 7 07:56 @drbachinsky RT @nextgenseek: 2013 The Biology of Genomes Starts Today http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/ #bog13 http://t.co/HmFxevCFiB
331739834399985665 May 7 07:58 @westr RT @nextgenseek: 2013 The Biology of Genomes Starts Today http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/ #bog13 http://t.co/HmFxevCFiB
331740278761340928 May 7 08:00 @ensembl #Ensembl at #CSHL our posters on genes, variation and comparative genomics by D. Carvalho-Silva, B. Aken, F. Cunningham, J. Herrero #bog13
331740381928628225 May 7 08:00 @westr RT @GholsonLyon: Cool, the HTML and PDF version of our recent paper on variant calling went live, just ahead of #BOG13. :) http://t.co/0G34wOMo9c
331748373050818560 May 7 08:32 @karls_es RT @nextgenseek: 2013 The Biology of Genomes Starts Today http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/ #bog13 http://t.co/HmFxevCFiB
331748835338633216 May 7 08:34 @cdb_gras RT @nextgenseek: 2013 The Biology of Genomes Starts Today http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/ #bog13 http://t.co/HmFxevCFiB
331761397853724672 May 7 09:24 @realscientists Interested in how garden gnomes differ genetically from forest gnomes? Follow the hashtag #bog13 for Biology of Gnomes @dgmacarthur
331761601403301888 May 7 09:25 @Cohnina RT @realscientists: Interested in how garden gnomes differ genetically from forest gnomes? Follow the hashtag #bog13 for Biology of Gnomes @dgmacarthur
331761973278683136 May 7 09:26 @realscientists Ah. Apparently #bog13 actually stands for Biology of Genomes. Never mind.
331762420605394945 May 7 09:28 @Cohnina RT @realscientists: Ah. Apparently #bog13 actually stands for Biology of Genomes. Never mind.
331764152794218499 May 7 09:35 @ElementoLab RT @nextgenseek: 2013 The Biology of Genomes Starts Today http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/ #bog13 http://t.co/HmFxevCFiB
331765302444556288 May 7 09:39 @EncodeDCC Heading to #bog13 with @elhong @miketarweed Seth, Cricket, Esther to talk about #metadata, searching #ENCODE data with #ontologies, and more
331766280409448448 May 7 09:43 @gknoProject @ChaseAllnMiller will be taking over the Twitter feed for #bog13 meeting.
331766447619588098 May 7 09:44 @katatonikkat RT @EncodeDCC: Heading to #bog13 with @elhong @miketarweed Seth, Cricket, Esther to talk about #metadata, searching #ENCODE data with #ontologies, and more
331766684308369410 May 7 09:45 @gknoProject Be sure to see posters/talks by MarthLab members @ChaseAllnMiller, @erikgarrison, @AlistairNWard, Andrew Farrell, and WanPing Lee at #bog13!
331767902325858305 May 7 09:50 @nextgenseek 48 talks and over 350 posters at #bog13. Get ready for All Things Genomics at 2013 The Biology of Genomes. http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/#.UYkGA-OKg30.twitter
331773397333835776 May 7 10:11 @aaronquinlan Great. My flight to #bog13 is already delayed.
331774493066412035 May 7 10:16 @cshlmeetings RT @GenomeBiology: Look out for Genome Biology's Editor, Clare Garvey, at @CSHLmeetings' #bog13 this week
331783023399936000 May 7 10:50 @dnatimes RT @GholsonLyon: Cool, the HTML and PDF version of our recent paper on variant calling went live, just ahead of #BOG13. :) http://t.co/0G34wOMo9c
331789328323858433 May 7 11:15 @bioinfosm yay! MT @nextgenseek 48 talks 350+ posters at #bog13. Get ready for All Things #Genomics - 2013 Biology of Genomes. http://nextgenseek.com/2013/05/2013-the-biology-of-genomes-starts-today/#.UYkGA-OKg30.twitter
331795569699860480 May 7 11:40 @larry_parnell @NIHDirector Using a 10-yr old computer (no upgrade), not attending #bog13 @ CSHL, genotyping of Puerto Ricans delayed #NIHSequesterImpact
331796639251566593 May 7 11:44 @drugmonkeyblog RT @larry_parnell: @NIHDirector Using a 10-yr old computer (no upgrade), not attending #bog13 @ CSHL, genotyping of Puerto Ricans delayed #NIHSequesterImpact
331797397053251586 May 7 11:47 @NatureRevGenet Getting excited for #bog13. NRG will not be #jetlagged this year!
331800649773748225 May 7 12:00 @girlscientist Plane to #bog13 way oversold. Upgrade to first class FTW! Almost makes up for two LIRR trains later....
331808025704820736 May 7 12:29 @casey6r0wn I love living in Philly today! 65 and sunny and I get to take the train to #bog13
331843626818744320 May 7 14:51 @Magda_Skipper Trying out new (for me) accommodation at CSH; Williams is very swanky indeed; Let the fun of Biology of Genomes begin #bog13
331844796417179649 May 7 14:55 @DrViborilla So sad I'm missing #bog13, but got to watch it on streaming. I may switch to USA time before i fall sleep in the office...:-)
331924373508349953 May 7 20:11 @ewanbirney For @michaelhoffman - be good to stir in CAGE into Segway. #bog13
331924541163061249 May 7 20:12 @girlscientist Next up: Meredith Carpenter of Bustamante lab, on enrichment of WGS libraries in ancient DNA. I'm in conflict, will let others tweet. #bog13
331924597312200705 May 7 20:12 @jbkinney RT @cshperspectives: New bingo card for CSH Biology of Genomes meeting #bog13 at http://bit.ly/18V6iCA (via @konrad_jk)
331924616840871936 May 7 20:12 @konrad_jk Oops! But he didn't make a rule on a comment followed by a question #bog13
331924687091290112 May 7 20:13 @GraveleyLab Sad to be missing #bog13 this year, but our #modencode work is in stellar hands with @BenofBerkeley and there are all the awesome tweets!
331924785124749312 May 7 20:13 @moorejh Loving these #bog13 tweets on the #complexity of #genomics. Keep them coming!
331924972073279488 May 7 20:14 @bullymom2 Meredith Carpenter on whole genome capture of ancient DNA #bog13
331925086338707456 May 7 20:14 @jcbarret Is Carpenter's title an Occupy reference? #bog13
331925093733253120 May 7 20:14 @westr RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
331925130781532160 May 7 20:14 @konrad_jk Meredith Carpenter: Pulling out the 1% (enriching libraries for ancient DNA) #bog13
331925412915585027 May 7 20:15 @Magda_Skipper Carpenter: a new method for whole genome capture for ancient DNA seq from samples that contain little endogenous DNA #bog13
331925543958228992 May 7 20:16 @bullymom2 MC: Only ~1% of DNA is actually from the ancient person. rest is environmental/bacteria. etc... #bog13
331925574098505729 May 7 20:16 @ewanbirney Carpenter points out that most ancient DNA requires well preserved - cold and dry - DNA. Rules out many samples. Time for enrichment #bog13
331925780244353024 May 7 20:17 @GenomeNathan Carpenter on sequencing the 1%: endogenous DNA in typical (read: degraded) ancient samples from typical (fairly warm, wet) places. #bog13
331925993688268800 May 7 20:18 @Magda_Skipper Carpenter: WISC - whole genome in solution capture #bog13
331926090455060481 May 7 20:18 @athmapai RT @jcbarret: Is Carpenter's title an Occupy reference? #bog13
331926092459962368 May 7 20:18 @bullymom2 MC: whole genome in solution capture (WISC) uses moder human DNA library to catch pieces from ancient DNA library (I think) #bog13
331926162915852288 May 7 20:18 @konrad_jk MC: Whole genome in solution capture to enrich for ancient DNA, increased mapping to genome on a number of samples #bog13
331926276858314752 May 7 20:19 @tuuliel Carpenter: whole genome capture method to increase efficiency of ancient DNA seq up to 130x. And cool mummy pics #bog13
331926347758854144 May 7 20:19 @ewanbirney Tested on Bulgarian, Danish, Colombian ancient DNA. ~1000AD #bog13
331926896969396224 May 7 20:21 @lukejostins Meredith Carpenter is describing how to do whole-genome pulldown for ancient DNA. Test case: go grind up some priceless dead stuff! #BoG13
331927094441431040 May 7 20:22 @erlichya What is the major difference between WISC and this http://www.ncbi.nlm.nih.gov/pubmed/20448179 I think I missed something #BOG13
331927431596343296 May 7 20:24 @Magda_Skipper Carpenter: using WISC to do population genetics on ancient Bulgarian tooth samples (Iron and Bronze Age) #bog13
331927656461373440 May 7 20:24 @ewanbirney @erlichya yup - genome wide and in solution. I suspect scan tees group gas done something similar knowing them #bog13
331927951811682304 May 7 20:26 @ewanbirney I love the human history via DNA history stuff. #bog13
331928181542096897 May 7 20:27 @MassSpecRNASeq With WISC aDNA enrichment, need ~4X fewer sequencing reads to get the same genomic coverage as compared to the non-enriched sample. #bog13
331928247707242496 May 7 20:27 @bullymom2 MC: possible to use WISC to sequence extinct species using related species. #bog13
331928264346054656 May 7 20:27 @elhong MC: Interspersing history and anthropology lessons during talk about ancient DNA - Bulgaria is a crossroad from Asia to Europe #bog13
331928662796533760 May 7 20:28 @adamauton @lukejostins wooo! Thanks for asking the question! The system works. #bog13
331928795839856642 May 7 20:29 @konrad_jk MC: Capture method increased number of reads and thus, SNPs called. Tightens up PCA plots #bog13
331929019874414592 May 7 20:30 @girlscientist Next up: David Gifford on "pioneer" and "settler" transcription factors. From ancient history to the Wild West? #bog13
331929114753773570 May 7 20:30 @notSoJunkDNA @erlichya that one is array-based and restricted to protein coding. What she presented in based on RNA binding to the aDNA library. #bog13
331929144445263873 May 7 20:30 @bullymom2 #bog13. My tweetdeck isn't working :(
331929732729958400 May 7 20:33 @GenomeNathan Carpenter: capture boosts # of typed dimorphisms ~10-fold. [Will she show heterozygosity?...] #bog13
331930032811429888 May 7 20:34 @Ubercoat Seriously cool work by Meredith Carpenter (Bustamante lab); their WISC technique can enrich for ancient DNA up to 139-fold #bog13
331930036032638976 May 7 20:34 @konrad_jk David Gifford on pioneer and settler TFs. Using DNase data to predict TF binding #bog13
331930148687454208 May 7 20:34 @lukejostins Next up - David Gifford is making an analogy involving transcription factors and, I guess, colonists? #BoG13
331930227502612480 May 7 20:35 @girlscientist Gifford: using DNase-seq to find protein binding in genome; combining with model to estimate since method under-represents protein. #bog13
331930277284806658 May 7 20:35 @GenomeNathan Carpenter reports getting ~1 read/called site (so sees hardly any hererozygosity)...but still sees plausible PCA clustering. #bog13
331930404531613697 May 7 20:35 @NGSman Excellent start to #BoG13...ancient DNA specific capture - awesome
331930439252058114 May 7 20:35 @gilbertjacka RT @ewanbirney: Tested on Bulgarian, Danish, Colombian ancient DNA. ~1000AD #bog13
331930794933248000 May 7 20:37 @Magda_Skipper Gifford: models unoccupied genome for DNAseq data and then overlays this with DNaseH1 data to maximise recovery of TF footprints #bog13
331931139335929856 May 7 20:38 @konrad_jk DG: Gets AUC of ~0.9 when predicting TF binding from his PIQ method (EM cleans up DNase data + PWM. #bog13
331931226401280001 May 7 20:39 @markgerstein Gifford: nice physically motivated idea of modeling layering of tfs onto unoccupied genome #bog13
331931304079790081 May 7 20:39 @girlscientist Gifford using method to ask, if each TF has many motifs throughout genome, why are generally only a small % bound at any time? #bog13
331931396920725505 May 7 20:39 @lukejostins DG: By modeling of DNase1 shadows you can impute ChIP-seq binding in ENCODE data using only DNase1 data and sequence context #BoG13
331931500549382144 May 7 20:40 @konrad_jk DG describes pioneers as TFs with high Pioneer Index, Chromatin Opening Index, and Social index #bog13
331931519998365696 May 7 20:40 @ewanbirney Gifford building a better footprinter for DNase. I'm frustrated about whether unoccupied = bare DNA or nucleosome bound. #bog13
331931875599843328 May 7 20:41 @girlscientist Gifford: we found a subset of transcription factors binding differently than others and call them "pioneers." #bog13
331931966758854656 May 7 20:42 @Magda_Skipper Gifford: pioneers are factors with distinct footprints and function to drive chromatin opening; can create enhancer-like structures #bog13
331932024208252929 May 7 20:42 @kayellbe Gifford lab follows up computational findings with reporter constructs and a dominant negative experiment. #molecularbiorespect #bog13
331932163522052096 May 7 20:42 @konrad_jk I love TF binding dynamics. The sys biologist in me is happy. DG: Certain pioneer TFs are directional #bog13
331932220942057472 May 7 20:43 @GenomeNathan O pioneers! Gifford on distinct computational signal of directly chromatin-binding 'pioneer transcription factors'. #bog13
331932362206228480 May 7 20:43 @girlscientist Gifford: "settler" factors bind after pioneers; don't open chromatin but require pre-opened chromatin to bind. #bog13
331932458662649856 May 7 20:43 @kayellbe Listening to talk about transcription factor binding patterns yet have sudden urge to play Oregon Trail. #bog13
331932591479455746 May 7 20:44 @genetisaur DG has defined pioneer and settler TFs as well as their social index and directionality. Personifying biology #bog13
331932682676228096 May 7 20:44 @Magda_Skipper Gifford: pioneers are rare, they are followed by settlers; loss of pioneers leads to chromatin closure #bog13
331932734148730881 May 7 20:45 @danjgaffney DG talk on pioneer factors from DNase - How were the pioneer footprints defined anyone? #bog13
331933093235679233 May 7 20:46 @bullymom2 #bog13 wifi is overloaded. :(
331933217525485568 May 7 20:47 @robin_andersson David Gifford: predicting pioneer TFs and subsequent settler TFs from DNase-seq. Interesting stuff! #bog13
331934063617249281 May 7 20:50 @joe_pickrell RT @danjgaffney: DG talk on pioneer factors from DNase - How were the pioneer footprints defined anyone? #bog13
331934720604639233 May 7 20:52 @KatherineMejia RT @girlscientist: Gifford: "settler" factors bind after pioneers; don't open chromatin but require pre-opened chromatin to bind. #bog13
331935313687613440 May 7 20:55 @johnhawks RT @tuuliel: Carpenter: whole genome capture method to increase efficiency of ancient DNA seq up to 130x. And cool mummy pics #bog13
331935328820674560 May 7 20:55 @erlichya So apparently the cool kids are watching the conference from Racker Reading Room (Blackford dining hall). #WiFi #Sofa #food #charger #bog13
331935364887494656 May 7 20:55 @AaronJSams RT @tuuliel: Carpenter: whole genome capture method to increase efficiency of ancient DNA seq up to 130x. And cool mummy pics #bog13
331935499554009088 May 7 20:56 @Ubercoat For those playing at home, more on why Carpenter's talk was cool: applications for museum samples, forensics, and EXTINCT SPECIES #bog13
331935503953833985 May 7 20:56 @danjgaffney In answer to my own question 3 components 1. Pioneer index 2. Chromatin opening index and 3. Social index #bog13
331935994989408257 May 7 20:58 @GenomeNathan Wondering whether some settler TFs are really colonizers... #bog13
331936078586056704 May 7 20:58 @michaelhoffman @ewanbirney CAGE is part of the SegRNA analysis. Any particular application you're thinking about? Please feel free to email. #bog13
331936966100791296 May 7 21:01 @peerinbiotech "Pro tip: watch the #bog13 talks from the bar." see conversation by @joe_pickrell at http://peerin.co/dAxj
331937937753255936 May 7 21:05 @bryan_howie RT @konrad_jk: New updated bingo cards will be ready at the start of the first session! Stay tuned. #bog13
331938551790968834 May 7 21:08 @bryan_howie RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
331938714878099457 May 7 21:08 @bryan_howie RT @girlscientist: #bog13 session organizers negotiating with the speakers to get them to agree to tweeting. I applied pressure and got one star up there!
331938776962170881 May 7 21:09 @ewanbirney Whoop. A full house for tweeting on the first session. #bog13
331938817089077249 May 7 21:09 @bullymom2 #bog13 starting up again. I heard the cattle call. will wifi work for me? I hope
331938952720302082 May 7 21:09 @bryan_howie RT @konrad_jk: New bingo card is ready in time for #bog13 at http://interpretome.com/#bingo and looks like first half of first session is all tweetable!
331939177455288320 May 7 21:10 @ewanbirney Mike on variance in chromatin and protein levels. #bog13
331939324029440000 May 7 21:11 @Magda_Skipper Snyder: what underlies differences among people, now looking at protein levels #bog13
331939441864241152 May 7 21:11 @girlscientist Mike Snyder now #bog13. Bar upset that talk appears to be unrelated to abstract.
331939484432232448 May 7 21:11 @bullymom2 Michael Snyder on variety of regulatory elements and does RNAseq actually tell us about protein levels #bog13
331939500639010819 May 7 21:11 @davetang31 RT @ewanbirney: Basically bidirectional CAGE == enhancers. I always wonder where the RNA goes/ when the polymerase stops from these. #bog13
331939573959634944 May 7 21:12 @konrad_jk My advisor Mike Snyder up with a talk that packs it all in as usual #bog13
331939597355450369 May 7 21:12 @joe_pickrell Snyder cites Pritchard, Gilad et al. I think it's @JacobFDegner, @rogerpique, @athmapai et al. FYI :) #bog13
331939921352876033 May 7 21:13 @AP_Boyle Is the video stream down for anyone else? #bog13
331940088445562880 May 7 21:14 @bullymom2 MS: histone mark peaks may differ between individuals. and between ancestry #bog13
331940205382758400 May 7 21:14 @bullymom2 MS: enhancer marks have the most variation #bog13
331940329920016384 May 7 21:15 @ewanbirney RT @joe_pickrell: Snyder cites Pritchard, Gilad et al. I think it's @JacobFDegner, @rogerpique, @athmapai et al. FYI :) #bog13
331940437449383938 May 7 21:15 @ewanbirney @girlscientist better topic in my view #bog13
331940645017112577 May 7 21:16 @bullymom2 MS: promoter and transcribed states (marks) are more consisten across individuals #bog13
331940862936363008 May 7 21:17 @konrad_jk MS: Enhancers and promoters are more conserved than we'd expect (not particularly interchangable) #bog13
331940876664315904 May 7 21:17 @robin_andersson Snyder on chromatin variations. Enhancer marks vary a lot between individuals. #bog13
331941031165693952 May 7 21:18 @girlscientist Snyder comparing chromatin state variation across indivs. See enhancers which are specific to human populations, but not other marks. #bog13
331941137982046209 May 7 21:18 @genetisaur @girlscientist everyone's heard the snyderome. I hope that's sarcasm. :-) #bog13
331941350801014787 May 7 21:19 @kayellbe Holy wall of graphics, Batman! Visualizations in this session could use a once over for on-screen interpretability. #bog13
331941451766321154 May 7 21:19 @notSoJunkDNA Snyder: "Variability increases with the number of variable SNPs". Well, thank you for this, Mike! #bog13
331941464261160960 May 7 21:19 @bullymom2 MS: correlate variable enhancer regions with variation in expression #bog13
331941474616897536 May 7 21:19 @Magda_Skipper Snyder: it is the enhances that are most variable in trio comparisons #bog13
331941711632805888 May 7 21:20 @bullymom2 MS it just too fast for me to keep up. bummer. #bog13
331941860966797312 May 7 21:21 @bullymom2 RT @kayellbe: Holy wall of graphics, Batman! Visualizations in this session could use a once over for on-screen interpretability. #bog13
331941892453441536 May 7 21:21 @casey6r0wn Mike Snyder: chromatin states differ between individuals. Mostly on/off not between states. #bog13
331941998112174081 May 7 21:21 @Magda_Skipper Snyder: follow about 6K protein level variation; a year and a half of mass spec runs #bog13
331942021059190784 May 7 21:21 @danrdanny Snyder has a different definition of technical details than I do. #bog13
331942114625740800 May 7 21:22 @MassSpecRNASeq MS: Used isobaric MS labeling to compare protein levels among different individuals. Results in a protein QTL. #bog13
331942412828155904 May 7 21:23 @girlscientist Snyder: measuring protein QTLs, pQTLs, which are not the same as eQTLs. #bog13
331942445581484033 May 7 21:23 @luke__ward Snyder: work (w @anshul) on population epigenomics. Variable enhancers are enriched for gwas/eqtl. Also proteomics, calling pQTLs #bog13
331942453118636032 May 7 21:23 @Magda_Skipper Snyder: half of pQTLs overlap with eQTLs; groups of proteins covary between individuals, these proteins tend to form complexes #bog13
331942484282331136 May 7 21:23 @ewanbirney Protein mass spec qtl. Great... 77 pqtls at 10% Fdr. Half overlap with eqtls. (Though thresholding? Do the unique pqtls have 0 eqtl) #bog13
331942635231137792 May 7 21:24 @MassSpecRNASeq MS: 50% of pQTLs correlated with eQTL data. Would be interesting to look at the other 50% that did not correlate. #bog13
331942792370741249 May 7 21:25 @larry_parnell MS's slides are neat. I'd like to see this done with dietary challenges in pQTL/eQTL analysis in blood, muscle, adipose #bog13
331942855226556417 May 7 21:25 @girlscientist Protip: if you have low self-esteem, you do NOT want to be at the CSHL bar listening to the commentary on your talk…. #bog13
331942894363607040 May 7 21:25 @evolvability RT @notSoJunkDNA: Snyder: "Variability increases with the number of variable SNPs". Well, thank you for this, Mike! #bog13
331942899484872707 May 7 21:25 @bullymom2 all current #bog13 session speakers have agreed to allowing tweets. woohoo
331943245963726849 May 7 21:26 @Magda_Skipper Snyder: almost all of these pQTLs are cis #bog13
331943365203591168 May 7 21:27 @pop_gen_JED Synder reports overlap between pQTL and eQTL was 50%. I believe overlap was higher in C. elegans from @leonidkruglyak's lab??? #bog13
331943537472053249 May 7 21:28 @robin_andersson Snyder: 50% of pQTLs are eQTLs. #bog13
331944047927230464 May 7 21:30 @ewanbirney Richard is asking one of questions I wanted to. On population specificity :) #bog13
331944100569939968 May 7 21:30 @GenomeNathan Two #bog13 talks highlight how enhancer activity varies greatly by tissue (Andersson) or tissue/haplotype (Snyder).
331944299820363777 May 7 21:31 @jcbarret Does cellular sequestration count on my bingo card for "sequester"? #bog13
331944340983263232 May 7 21:31 @bullymom2 Ali Mortazavi on beneficial nematodes #bog13
331944358540615680 May 7 21:31 @Magda_Skipper "Next speaker is Ali and he is going to say something interesting, I'm sure" #bog13
331944490195628034 May 7 21:31 @klmr RT @kayellbe: Holy wall of graphics, Batman! Visualizations in this session could use a once over for on-screen interpretability. #bog13
331944555916189696 May 7 21:32 @ewanbirney Ali Mortazavi takes us back to nematodes. worm lovers session. #bog13
331944739467304960 May 7 21:32 @girlscientist Word for next bingo card: "entomopathogenic nematode" @konrad_jk #bog13
331944782681214976 May 7 21:32 @dnadiver Who knew? Nematodes can be bought at Home Depot?! #bog13
331945049845805056 May 7 21:34 @westr RT @konrad_jk: MS: Enhancers and promoters are more conserved than we'd expect (not particularly interchangable) #bog13
331945076529967104 May 7 21:34 @GenomeNathan The worm turns: first Baxter on nematodes who eat us; now Mortazavi on those who eat (non-human) pests #bog13
331945325600329728 May 7 21:35 @bullymom2 I think my pevios tweet from theoatmeal is relevant now #bog13
331945417254240256 May 7 21:35 @robin_andersson Mortazavi: which genes make nematodes jump? #bog13
331945421448544256 May 7 21:35 @bullymom2 Am: which genes allow the nematode to jump on its prey? #bog13
331945440687841282 May 7 21:35 @Magda_Skipper Mortazavi shows movies of jumping worms; applause all around! But which genes underlie this behaviour? #bog13
331945465144815616 May 7 21:35 @AP_Boyle These talks still look suspiciously like a blank screen... #bog13
331945550079459330 May 7 21:36 @luke__ward A Mortazavi: entomopathogenic nematodes. Eat larva from inside out. Reminds me of "bag of worms" phenotype in vulvaless C. elegans. #bog13
331945829768261633 May 7 21:37 @MassSpecRNASeq AM: Which genes cause worm to break out kung fu jumping moves. #bog13
331946243607650304 May 7 21:38 @Magda_Skipper Mortazavi shows movies of jumping worms; which genes govern this behaviour? #bog13
331946337790722049 May 7 21:39 @GenomeNathan Paging @jakesocha: Steinerema worms coil to jump kinda like flying snakes (but tumble more in flight?)! #bog13
331946443571073025 May 7 21:39 @tuuliel RT @jcbarret: Does cellular sequestration count on my bingo card for "sequester"? #bog13
331946896996311040 May 7 21:41 @AWRgenes RT @tuuliel: Carpenter: whole genome capture method to increase efficiency of ancient DNA seq up to 130x. And cool mummy pics #bog13
331948260283518976 May 7 21:46 @eperlste RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
331948469734473729 May 7 21:47 @ewanbirney @girlscientist could someone get a Sam Adams set up for me in about... 30mins (pretty please) - before the scrum starts #bog13
331948699225821184 May 7 21:48 @danjgaffney Looking forward to Leo's talk #bog13
331948810886582272 May 7 21:48 @bullymom2 Leopold Parts on quantitative genomics of single cells (yeast) #bog13
331949392338767873 May 7 21:51 @Magda_Skipper Parts: measures protein levels in single cells, those cells are GFP tagged yeast cells #bog13
331949450077560834 May 7 21:51 @ewanbirney Leo parts talking about protein qtls - in yeast in a yeast cross measured by GFP strain. #bog13
331949865426886657 May 7 21:53 @ewanbirney Great things about yeast 1) you can casually talk about 4000 *crosses* 2) there is a pre made library of GFP lines 3) are haploid #bog13
331950362498052096 May 7 21:55 @ewanbirney And of course 4) yeast is involved in bread making and beer brewing ;) #bog13
331950595533578242 May 7 21:56 @elhong Yeast: doing single cell biology before it was cool #HipsterScientists #bog13
331951076087562240 May 7 21:57 @sphel70 @girlscientist were those specific enhancers defined by h3k4me1 or h3k27ac? #bog13
331951232757428224 May 7 21:58 @danjgaffney <10% proteins significantly heritable - much lower than for transcription #bog13
331951323115302913 May 7 21:58 @GenomeNathan Why do kids resemble parents? Parts compares m/paternal* allelic RNA & protein expression in yeast. #bog13 [*: by mating type??]
331951352488009728 May 7 21:59 @bullymom2 Why doesn't LP just say he is doing linkage analysis? #bog13
331951364911546371 May 7 21:59 @luke__ward L.Parts: Heritability of mRNA levels in yeast is 50% (in human 20-40%). Measuring heritability of protein levels - much lower. #bog13
331951543676968962 May 7 21:59 @ewanbirney Leo now doing extreme phenotyping on the GFP tagged protein levels. #bog13
331951645103624192 May 7 22:00 @deannachurch Thanks for all of the great #bog13 tweets! Especially @girlscientist @GenomeNathan and @ewanbirney
331952179567030272 May 7 22:02 @markgerstein Part: nice heritability image in talk by Rene Malterte from http://Planet-science.com #bog13
331952180087111681 May 7 22:02 @Magda_Skipper Beers are on Leo Parts if you can talk about heritability for at least 5 min #bog13
331952521029505026 May 7 22:03 @Magda_Skipper Parts: highly heritable traits do not necessarily have heritable intermediates #bog13
331953090754392064 May 7 22:05 @ewanbirney @deannachurch @girlscientist hmmm. That's not been my experience in rugby. Good training for blackford #bog13
331953313748766720 May 7 22:06 @notSoJunkDNA Circular RNA! Julia Salzmam from Pat Brown's lab #bog13
331953425199808513 May 7 22:07 @girlscientist Julia Salzman on circular RNAs: were looking for scrambled transcripts in cancer and ending up finding circular RNAs. #bog13
331953660030509056 May 7 22:08 @ewanbirney Salzman describing the serendipity in finding circular RNA - they were hunting for rearranged genes in cancer. #bog13
331953662937157632 May 7 22:08 @GenomeNathan Salzman: circular RNAs flew 'under the radar, for decades'. (How 'bout eons?!) #bog13
331953991468597248 May 7 22:09 @GenomeNathan RT @ewanbirney: Salzman describing the serendipity in finding circular RNA - they were hunting for rearranged genes in cancer. #bog13
331954044035817475 May 7 22:09 @girlscientist @sphel70 sorry he was talking too fast and bar was too loud for me to get that; maybe someone else on #bog13 feed did.
331954063166029825 May 7 22:09 @Magda_Skipper Salzman on prevalent circular RNAs http://www.ncbi.nlm.nih.gov/pubmed/22319583 #bog13
331954223434592256 May 7 22:10 @notSoJunkDNA @GenomeNathan well, the data was there to discover them for about a decade... #bog13
331954410286616576 May 7 22:11 @BrownGeneGal RT @GenomeNathan: Salzman: circular RNAs flew 'under the radar, for decades'. (How 'bout eons?!) #bog13
331954683864293380 May 7 22:12 @Magda_Skipper Salzman: Circular RNAs generate exome scrambling seen in RNAseq data #bog13
331954778538115072 May 7 22:12 @girlscientist Yay for enzymes depicted as PacMan. In this case RnaseR in assays used to detect circular formation of RNA. #bog13
331954965507608576 May 7 22:13 @girlscientist Here's a first: being heckled in the bar for trying to listen to a talk for live-tweeting! #bog13
331955280780881920 May 7 22:14 @robin_andersson Salzman: exon scrambling in >1k genes? -> circular RNAs. #bog13
331955441045213186 May 7 22:15 @konrad_jk RT @girlscientist: Here's a first: being heckled in the bar for trying to listen to a talk for live-tweeting! #bog13
331955651934826496 May 7 22:16 @girlscientist Salzman: thousands of human genes express circular RNA, and as the dominant isoform for some. Enriched in polyA- fraction. #bog13
331956224251797505 May 7 22:18 @girlscientist Salzman: analyzing ENCODE data for circular RNA, and regulation of circular to linear RNA isoform ratios for genes. #bog13
331956315293351936 May 7 22:18 @GenomeNathan Salzman: circular RNA often poly-A tailless. [Now we know what spinning dogs are imitating...] #bog13
331956633548763137 May 7 22:20 @mike_schatz Second by second updates from the eagle #bog13 @girlscientist http://t.co/i535gWUm0Z
331956768458543105 May 7 22:20 @vezzi84 RT @mike_schatz: Second by second updates from the eagle #bog13 @girlscientist http://t.co/i535gWUm0Z
331956778105446400 May 7 22:20 @girlscientist See? Heckling. RT @mike_schatz: Second by second updates from the eagle #bog13 @girlscientist http://t.co/VDTRCIuquM
331956822841896961 May 7 22:20 @evolvability Respect! RT @mike_schatz: Second by second updates from the eagle #bog13 @girlscientist http://t.co/yB3PTGX5MH
331956869197336577 May 7 22:20 @jjmerkin #bog13 saltzman talk about circular rna-has something like rolling circle rt-pcr with labeled primer been done to verify circular status?
331956894883278849 May 7 22:21 @Magda_Skipper Salzman: different circular isoforms per locus; their relative abundance appears to be regulated #bog13
331957594828701696 May 7 22:23 @girlscientist Request for #bog13 speakers tomorrow: could you please hold the microphone so it picks up your voice answering q's? Very hard to hear now.
331957995271499777 May 7 22:25 @ewanbirney Biology is wonderfully... novel. Circular RNAs - I would not have predicted this. Lots of questions triggered by this #bog13
331958039072624641 May 7 22:25 @Magda_Skipper Salzman: circ RNAs are not translated #bog13
331960884106756098 May 7 22:36 @danrdanny Shuttle to off-site hotels wait. #bog13 http://t.co/nWsYuIYMHh
331963028612472832 May 7 22:45 @jjmerkin #bog13 the wifi is oddly more responsive now.
331964840488865792 May 7 22:52 @pfanderson RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
331965404245278720 May 7 22:54 @fabricatus RT @girlscientist: Shout out for @genomeresearch! #bog13 Kheradpour et al. paper just out validating ENCODE enhancers.
331966068602060800 May 7 22:57 @OmicsOmicsBlog RT @girlscientist: Gifford: "settler" factors bind after pioneers; don't open chromatin but require pre-opened chromatin to bind. #bog13
331967135914004480 May 7 23:01 @OmicsOmicsBlog 1 contig Streptomyces: @pacbio + @illumina seq & @bionanogenomics optical mapping; #bog13 poster #46 (plus spider mite, wheat, human)
331967187902398466 May 7 23:01 @Ubercoat I don't know about everyone else, but the shuttle bus back to my hotel is pumping dance pop for maximum gemomics party #bog13
331973980137324544 May 7 23:28 @JChrisPires RT @ewanbirney: Getting ready for the schlep across the pond for biology of genomes 2013 (#bog13). This is my favourite meeting of the year.
331974093492588544 May 7 23:29 @JChrisPires RT @homolog_us: @ewanbirney @emblebi #bog13 What Fraction of Genome is Really Functional? (http://www.homolog.us/blogs/2013/05/07/what-fraction-of-genome-is-really-functional-2/)
331974169799569410 May 7 23:29 @JChrisPires RT @girlscientist: Shout out for @genomeresearch! #bog13 Kheradpour et al. paper just out validating ENCODE enhancers.
331974207489572865 May 7 23:29 @JChrisPires RT @ewanbirney: Basically bidirectional CAGE == enhancers. I always wonder where the RNA goes/ when the polymerase stops from these. #bog13
331974256416145408 May 7 23:30 @JChrisPires RT @girlscientist: Next up: David Gifford on "pioneer" and "settler" transcription factors. From ancient history to the Wild West? #bog13
331974315413225473 May 7 23:30 @JChrisPires RT @girlscientist: Gifford: "settler" factors bind after pioneers; don't open chromatin but require pre-opened chromatin to bind. #bog13
331974406509305856 May 7 23:30 @JChrisPires RT @ewanbirney: Salzman describing the serendipity in finding circular RNA - they were hunting for rearranged genes in cancer. #bog13
331974446237761537 May 7 23:30 @JChrisPires RT @girlscientist: Yay for enzymes depicted as PacMan. In this case RnaseR in assays used to detect circular formation of RNA. #bog13
331974526873239552 May 7 23:31 @JChrisPires RT @mike_schatz: Second by second updates from the eagle #bog13 @girlscientist http://t.co/i535gWUm0Z
331974576839983105 May 7 23:31 @JChrisPires RT @ewanbirney: Biology is wonderfully... novel. Circular RNAs - I would not have predicted this. Lots of questions triggered by this #bog13
331974615712792576 May 7 23:31 @JChrisPires RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
331975029136961536 May 7 23:33 @CrowdedHead RT @ewanbirney: Getting ready for the schlep across the pond for biology of genomes 2013 (#bog13). This is my favourite meeting of the year.
331975166827581440 May 7 23:33 @NGSman Great first session organizers #BoG13 circular rna, transcriptome factor gold rush, nematodes! Now time for the 3rd session :)
331976637392510976 May 7 23:39 @JChrisPires @girlscientist Thanks for all your tweets for #bog13 for #genome #bioinformatics #sequencing
331977077777645573 May 7 23:41 @CrowdedHead RT @elhong: Yeast: doing single cell biology before it was cool #HipsterScientists #bog13
331977214260293633 May 7 23:41 @bioinfosm Tnx MT@erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see them all in this Google Doc updated every min #genomics
331978418151366656 May 7 23:46 @ASKlabsAlberta RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
331979785515450369 May 7 23:52 @JChrisPires RT @joe_pickrell: Snyder cites Pritchard, Gilad et al. I think it's @JacobFDegner, @rogerpique, @athmapai et al. FYI :) #bog13
331980795168296962 May 7 23:56 @rtraborn RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
331984038329982976 May 8 00:08 @Graham_Coop RT @joe_pickrell: Snyder cites Pritchard, Gilad et al. I think it's @JacobFDegner, @rogerpique, @athmapai et al. FYI :) #bog13
331987925577367553 May 8 00:24 @aaronquinlan Great first night at #bog13. Going to bed still thinking about the circular RNA story.
331989058203025409 May 8 00:28 @aaronquinlan I also enjoyed the "pioneer" v. "settler" TF binding story based on comp. analysis of Dnase peak patterns from David Gifford. #bog13
331989410126118912 May 8 00:30 @robin_andersson Learn more about the FANTOM project here: http://fantom.gsc.riken.jp/ #bog13
331991969830150144 May 8 00:40 @rtraborn Thanks to @girlscientist, @aaronquinlan, @robin_andresson & the many others who are posting from #bog13- I'm filling up @evernote with ideas
332003741979000833 May 8 01:27 @westr RT @robin_andersson: Learn more about the FANTOM project here: http://fantom.gsc.riken.jp/ #bog13 #pm101 #genomics
332003753144221696 May 8 01:27 @PacBio RT @OmicsOmicsBlog: 1 contig Streptomyces: @pacbio + @illumina seq & @bionanogenomics optical mapping; #bog13 poster #46 (plus spider mite, wheat, human)
332004061668859905 May 8 01:28 @pickleswarlz Can't sleep, skimming through #bog13 tweets, come across talk about CIRCULAR RNA. Now my mind is spinning, thanks for insomnia, science!
332004222235185152 May 8 01:29 @ErickLoomis RT @cshperspectives: New bingo card for CSH Biology of Genomes meeting #bog13 at http://bit.ly/18V6iCA (via @konrad_jk)
332004440871677953 May 8 01:30 @ACA_Labo RT @westr: RT @robin_andersson: Learn more about the FANTOM project here: http://fantom.gsc.riken.jp/ #bog13 #pm101 #genomics
332006020643692544 May 8 01:36 @Elijaht87 RT @OmicsOmicsBlog: 1 contig Streptomyces: @pacbio + @illumina seq & @bionanogenomics optical mapping; #bog13 poster #46 (plus spider mite, wheat, human)
332015155590348800 May 8 02:12 @CMDooley77 RT @Magda_Skipper: Andersson: ENCODE is good at identifying enhances but PHANTOM is better at identifying active ones #bog13
332018382532648960 May 8 02:25 @SpunkyScientist RT @elhong: Yeast: doing single cell biology before it was cool #HipsterScientists #bog13
332020885408083968 May 8 02:35 @JacobFDegner I wish I was at #bog13, and people haven't even started tweeting about the lobster
332038608443801601 May 8 03:45 @DNADigest RT @girlscientist: Yay for enzymes depicted as PacMan. In this case RnaseR in assays used to detect circular formation of RNA. #bog13
332050074513313794 May 8 04:31 @4a6a5a RT @ewanbirney: Leo parts talking about protein qtls - in yeast in a yeast cross measured by GFP strain. #bog13
332050216075276288 May 8 04:31 @ispiyou RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332069752304443392 May 8 05:49 @drtkeane grant panic deadline over, now to switch to something more interesting - catching up on #bog13 tweets
332071926581309440 May 8 05:58 @KevinADavies Circular RNAs discovered by a comput'nal statistician, Julia Salzman, published @PLOSONE 2012. #Howcoolisthat #bog13 http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0030733
332072810514116609 May 8 06:01 @SeqComplete buzz- The Biology of Genomes #bog13 is out! http://paper.li/SeqComplete/1363021264 ▸ Top stories today via @JChrisPires @Magda_Skipper @erlichya
332073330570051584 May 8 06:03 @kenpcg RT @KevinADavies: Circular RNAs discovered by a comput'nal statistician, Julia Salzman, published @PLOSONE 2012. #Howcoolisthat #bog13 http://t.co/Z9JwfnQ3ZX
332080665191387136 May 8 06:32 @diegoriano RT @ewanbirney: Biology is wonderfully... novel. Circular RNAs - I would not have predicted this. Lots of questions triggered by this #bog13
332089140164321280 May 8 07:06 @drtkeane Anybody got an elec copy of the #bog13 running order?
332094951049555968 May 8 07:29 @pauldennyuk @KevinADavies @PLOSONE but found earlier for Sry transcript in mouse: http://www.ncbi.nlm.nih.gov/pubmed/7684656 #bog13
332099981668397057 May 8 07:49 @spreadscienced Biology of Genomes, all week! #BoG13 #nygenome
332102203156361216 May 8 07:58 @laxvid Looking forward to livecast of #bog13 with @larry_parnell today
332103019271446530 May 8 08:01 @ensembl #bog13 #Ensembl posters after 2pm EDT today: Genebuild (B. Aken), Variation (F. Cunningham), Overview (D. Carvalho-Silva).
332103542124986369 May 8 08:03 @stephaniehicks Thank you in advance to all the tweeters at #bog13 this week! Wishing I was there, but all the fantastic tweets make it easy to keep up! :)
332110378274287616 May 8 08:30 @genetics_blog Circular RNAs Are the Predominant Transcript Isoform from Hundreds of Human Genes in Diverse Cell Types http://www.plosone.org/article/info:doi/10.1371/journal.pone.0030733 #bog13
332110644293795841 May 8 08:32 @KevinADavies RT @pauldennyuk: @KevinADavies @PLOSONE but found earlier for Sry transcript in mouse: http://www.ncbi.nlm.nih.gov/pubmed/7684656 #bog13
332112994492354560 May 8 08:41 @JChrisPires RT @Magda_Skipper: Salzman: Circular RNAs generate exome scrambling seen in RNAseq data #bog13
332113011504459776 May 8 08:41 @JChrisPires RT @Magda_Skipper: Salzman: different circular isoforms per locus; their relative abundance appears to be regulated #bog13
332113027287621634 May 8 08:41 @JChrisPires RT @Magda_Skipper: Salzman: circ RNAs are not translated #bog13
332113060904968192 May 8 08:41 @JChrisPires RT @SeqComplete: buzz- The Biology of Genomes #bog13 is out! http://paper.li/SeqComplete/1363021264 ▸ Top stories today via @JChrisPires @Magda_Skipper @erlichya
332114229702295552 May 8 08:46 @EduEyras RT @pauldennyuk: @KevinADavies @PLOSONE but found earlier for Sry transcript in mouse: http://www.ncbi.nlm.nih.gov/pubmed/7684656 #bog13
332114795895599105 May 8 08:48 @nextgenseek Wow didnt know cirRNA is 20 yrs old“@pauldennyuk: @KevinADavies @PLOSONE found earlier for Sry in mouse: http://www.ncbi.nlm.nih.gov/pubmed/7684656 #bog13”
332116975931228162 May 8 08:57 @ewanbirney Check out VEP by Fiona Cunningham et al @ensembl poster number 64 today #bog13 and...
332117424553988096 May 8 08:58 @ewanbirney Poster number 44 by enrico cavanno - one of two posters on a very cool drosophila development eqtls from Furlong and Birney labs. #bog13
332117583878815744 May 8 08:59 @ewanbirney No bias of course there. But it is great - development specific eQTLs :) #bog13
332117650232705024 May 8 08:59 @gawbul RT @ewanbirney: Check out VEP by Fiona Cunningham et al @ensembl poster number 64 today #bog13 and...
332117678191943680 May 8 08:59 @gawbul RT @ewanbirney: No bias of course there. But it is great - development specific eQTLs :) #bog13
332118179876835328 May 8 09:01 @danrdanny 56% packet loss, rtt 1500ms to http://mindspring.com. Will twitter survive? #bog13
332118397649289216 May 8 09:02 @ewanbirney First up mark daly on complex neuropsychiatric diseases - drugs in this area based on chance discoveries #bog13
332118862877323265 May 8 09:04 @ewanbirney Mark quotes the whole genome techniques - visscher etal - showing that despite no lovi being significant, still signal in variants #bog13
332118880933785600 May 8 09:04 @dgmacarthur Mark Daly: all current treatments for psychiatric disease rely on accidental discoveries in the 1950s. #bog13
332118898633736192 May 8 09:04 @cshperspectives Daly: GWAS has failed. Long live GWAS! #bog13
332118921182322690 May 8 09:04 @genomeresearch RT @girlscientist: Shout out for @genomeresearch! #bog13 Kheradpour et al. paper just out validating ENCODE enhancers.
332118925213052928 May 8 09:04 @evolvability RT @dgmacarthur: Mark Daly: all current treatments for psychiatric disease rely on accidental discoveries in the 1950s. #bog13
332119152464637952 May 8 09:05 @GenomeNathan Daly: Our drugs for complex neuropsychiatric disease reflect chance findings decades ago. How to turn newer insights into treatments? #bog13
332119264070868992 May 8 09:06 @dgmacarthur MD: early GWAS in psychiatric disease (eg schizophrenia) were disappointing - just like other complex traits, such as height. #bog13
332119518077931520 May 8 09:07 @bullymom2 MD: with that many cases and controls (35K and 46K) don't they have to worry about relatedness? #bog13
332119526156152834 May 8 09:07 @ewanbirney Comes together on meta analysis 10,000 ... Replicated loci come out... 62 loci with 25,000 samples. #bog13
332119526504288256 May 8 09:07 @erlichya Mark Daly: similar sample burden for different complex traits #bog13
332119588584173571 May 8 09:07 @bullymom2 correction: that was my question, not a statement by MD. #bog13
332119724760649728 May 8 09:08 @dgmacarthur MD: but new schizophrenia GWAS - now 34K cases, 46K controls - reveal over 100 genome-wide significant loci! #bog13
332119908206919680 May 8 09:08 @GenomeNathan Daly shows schizophrenia Manhattan plot that looks more like São Paolo. #bog13 #vastdensepeakscape
332120189594394624 May 8 09:09 @bullymom2 but did they account for relatedness?!? MT @dgmacarthur: MD: new schizophrenia GWAS 34K cases, 46K controls, >100 significant loci! #bog13
332120219613016066 May 8 09:10 @ewanbirney MD: Twice as strong risk indicator for life time risk schizophrenia vs family studies from Danish birth cohort #bog13
332120519824527360 May 8 09:11 @dgmacarthur Yes. RT @bullymom2: but did they account for relatedness?!? MT @dgmacarthur: MD: new schizophrenia GWAS, >100 significant loci! #bog13
332120615291060226 May 8 09:11 @markomanka RT @dgmacarthur: MD: but new schizophrenia GWAS - now 34K cases, 46K controls - reveal over 100 genome-wide significant loci! #bog13
332120666159579137 May 8 09:11 @WiringTheBrain RT @dgmacarthur: MD: but new schizophrenia GWAS - now 34K cases, 46K controls - reveal over 100 genome-wide significant loci! #bog13
332120845877121024 May 8 09:12 @erlichya Md shows a qq plot of rare variants in sci. that exactly follows the null hypothesis. Suggests to focus on de novo to improve SNR #bog13
332120933001199617 May 8 09:12 @WiringTheBrain RT @ewanbirney: Comes together on meta analysis 10,000 ... Replicated loci come out... 62 loci with 25,000 samples. #bog13
332121205509337088 May 8 09:14 @EncodeDCC See poster #52 today by Esther Chan to learn how #bigdata files and #metadata are submitted to the DCC in the @ENCODE_NIH project #bog13
332121553322004481 May 8 09:15 @bullymom2 MD: Beware type I error as number of samples increases. would expect to see more de novo SNVs. which are causal? #bog13
332121748663304192 May 8 09:16 @ewanbirney De novo mutations in autism spectrum disorders - a higher load - and higher ko. But statistical headaches as sample number go up #bog13
332121939474788353 May 8 09:16 @bullymom2 MD: mutability depends on length and sequence. model this process to predict probability of de novo mutations. #bog13
332122020357742593 May 8 09:17 @GenomeNathan Daly Q: How do we distinguish real de novo enrichment in disease X from noise/ascertainment bias? A: Leverage mutation class priors. #bog13
332122201488760832 May 8 09:17 @bullymom2 MD: Using the modelling predictions, show significantly more de novo mutations than expected at some genes. #bog13
332122524819259392 May 8 09:19 @bullymom2 MD: de novo SNVs are associated with intellectual disability rather than autism spectrum. Q: so may have found a subset? #bog13
332122639386697729 May 8 09:19 @dgmacarthur MD: de novo LoF mutations are enriched in low-IQ autism cases, but not in normal-IQ cases. Very interesting… #bog13
332123033110183937 May 8 09:21 @asharmaiisc RT @cshperspectives: Daly: GWAS has failed. Long live GWAS! #bog13
332123257396400129 May 8 09:22 @girlscientist Sorry tweeps, wifi nonexistent in #bog13 this morning. Will tweet some highlights later when I don't have to peck them out on iPhone.
332123268024762368 May 8 09:22 @WiringTheBrain RT @dgmacarthur: MD: de novo LoF mutations are enriched in low-IQ autism cases, but not in normal-IQ cases. Very interesting… #bog13
332123301117841409 May 8 09:22 @mason_lab #bog13 increased rate of LOF alleles in most neuro disorders. More soon from Blekhman, SNVs~ neural tube defects in the noncoding areas
332123390016110593 May 8 09:22 @WiringTheBrain RT @bullymom2: MD: mutability depends on length and sequence. model this process to predict probability of de novo mutations. #bog13
332123534971252737 May 8 09:23 @cshperspectives RT @dgmacarthur: MD: de novo LoF mutations are enriched in low-IQ autism cases, but not in normal-IQ cases. Very interesting… #bog13
332123666194259968 May 8 09:23 @benoitbruneau Need more of these. “@ewanbirney: No bias of course there. But it is great - development specific eQTLs :) #bog13”
332124036660359168 May 8 09:25 @bullymom2 Ran Bleckman on neural tube defects. I don't see a bird. can we tweet? #bog13
332124957695959040 May 8 09:28 @bullymom2 RB: used deep sequencing to find candidate high impact variants for neural tube defects #bog13
332125359048892418 May 8 09:30 @WhiteheadInst RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332125411532226561 May 8 09:30 @Magda_Skipper Blekhman: WGS of 80 neural tube defect individuals to find genetic basis #bog13
332125530855964672 May 8 09:31 @bullymom2 RB: pathway analysis of coding SNVs. 350 novel SNVs in 337 genes. 4.7 novel per individual #bog13
332125692059865088 May 8 09:31 @bullymom2 RB: novel SNVs enriched in retinol biosynthesis #bog13
332125693418815489 May 8 09:31 @dpendletonk Sad but true RT @ewanbirney: First up mark daly on complex neuropsychiatric diseases - drugs in this area based on chance discoveries #bog13
332126125444702211 May 8 09:33 @bullymom2 RB: look at noncoding regions: enhancers that drive expression in neural tube #bog13
332126232600780800 May 8 09:33 @ongenetics RT @dgmacarthur: MD: de novo LoF mutations are enriched in low-IQ autism cases, but not in normal-IQ cases. Very interesting… #bog13
332126417817071616 May 8 09:34 @gingi0 Overwhelmed by all the science at the Biology of Genomes? The Geology of Beenomes meeting is being held across the harbor. #gob13 #bog13
332126611585523713 May 8 09:35 @erlichya Remember these old times when internet was not around? Come to CSHL's Grace auditorium to experience them again! #bog13 #TweetViaPigeons
332126931132772353 May 8 09:36 @bioinfosm RT @bullymom2 RB: pathway analysis of coding SNVs. 350 novel SNVs in 337 genes. 4.7 novel per individual #bog13
332126969711964160 May 8 09:36 @bullymom2 RB: look at transcription factor binding sites. novel TFBS variants in cases enrichmed for Sp2 and Gcn5 (both relevant to NTD) #bog13
332127415428059137 May 8 09:38 @AMathelier RT @robin_andersson: Learn more about the FANTOM project here: http://fantom.gsc.riken.jp/ #bog13
332127418955489280 May 8 09:38 @bullymom2 RB: used zebrafish to validate novel nonsynonymous SNVs. I <3 zebrafish. #bog13
332127462702071808 May 8 09:38 @ewanbirney @erlichya need to get your IP address early from the dhcp server and then keep traffic going so you are not dropped #bog13
332127468112728064 May 8 09:38 @wrmccombie Very nice talk by Daly. Balanced broad view of the complexity with some exciting findings. #bog13
332127804969857024 May 8 09:40 @bullymom2 @ewanbirney can you ask speakers to speak into microphone? Can be hard to hear screen in cafeteria. thanks. #bog13
332127872812711937 May 8 09:40 @Magda_Skipper RB: structural variants in developmental enhancers in NTD patients, coding variants and TF binding variants all point to RA defects #bog13
332128326648999937 May 8 09:42 @gtyrelle Just started watching #bog13 online, missed Mark Daly's talk, but have the archive for the rest of the week #bogoff13
332128372807327746 May 8 09:42 @lukejostins Ran Bleckman is looking for genetic causes of spinal bifida. Common (0.1%) despite 1/2ing incidence in US with folic acid supplements #BoG13
332128387449626624 May 8 09:42 @bullymom2 audience question: what about CpG bias at Sp2. is rate of background mutation accounted for? RB: have preliminary analysis #bog13
332128425672339456 May 8 09:42 @lukejostins RB looked for rare variants in coding regions, enhancers and TF binding sites. No big hits, lots of hints (few p-values) #BoG13
332128802580865024 May 8 09:44 @bullymom2 RB: currently have methylation experiments going as well #bog13
332128960672591873 May 8 09:44 @ewanbirney @bullymom2 will talk at the break #bog13
332128975243579392 May 8 09:44 @bullymom2 Andrew Brown just said we can tweet his talk. gene expression and epistasis. #bog13
332129206546878466 May 8 09:45 @lukejostins Ohh nice question from @ewanbirney -> some TF motifs have high GC, and thus higher mutation rate. Does this explain RB's SP2 signal? #BoG13
332129217699512323 May 8 09:45 @cabreradm RT @dgmacarthur: MD: but new schizophrenia GWAS - now 34K cases, 46K controls - reveal over 100 genome-wide significant loci! #bog13
332129235001020418 May 8 09:45 @DrViborilla RT @bullymom2: Andrew Brown just said we can tweet his talk. gene expression and epistasis. #bog13
332129430443003904 May 8 09:46 @bullymom2 AB: look for eQTL for variance of gene expression (not mean expression) #bog13
332129727936622593 May 8 09:47 @ngsgene way to go! RT @bullymom2 Andrew Brown just said we can tweet his talk. gene expression and epistasis. #bog13 #bioinformatics
332129848782893056 May 8 09:48 @GenomeNathan Within-gene epistasis: Brown cites @tuuliel finding that protein-altering variants are often linked to expression-altering variants. #bog13
332130516830650368 May 8 09:51 @bullymom2 AB: reduce search space (1MB window), inc. type I error. 1st look for additive effects, then interaction effects reduces # tests. #bog13
332130652600279040 May 8 09:51 @larry_parnell @brent_p Don't know about that R Andersson paper on DNase hypersens and enhancer sites. Was an observation @ #bog13
332131104557518848 May 8 09:53 @bullymom2 AB: uses MZ twins to find increased variance by gt at a single site. evidence for epistasis rather than GXE #bog13
332131558565756931 May 8 09:55 @bullymom2 MT reduce search space (1MB window), DECREASE type I error. 1st look for additive effects, then interaction effects reduces # tests. #bog13
332131603188940805 May 8 09:55 @ewanbirney Interesting use of variance to find epistasis in expression qtls by brown in twins. Great use of MZ twins for variance fixed genotype #bog13
332132103363891200 May 8 09:57 @atmat RT @ewanbirney: Salzman describing the serendipity in finding circular RNA - they were hunting for rearranged genes in cancer. #bog13
332132984675237889 May 8 10:00 @00livier Andrew Brown: epistatic interactions are hard to find but variance QTL offer plausible candidates: great use of twin study ! #bog13
332133305950543874 May 8 10:02 @bullymom2 audience question: could LD btw eQTL and gene SNV give you same picture you would see with epistasis? Yes. #bog13
332133681793736704 May 8 10:03 @notSoJunkDNA Andrew Brown "I am not sure I understood your question but I am sure I should" #bog13
332133897318064130 May 8 10:04 @00livier AB answer to question: "not sure I understood you but I feel like I need to" LOL #bog13
332134269638041600 May 8 10:05 @GenomeNathan Esko: 'Everyone has a height, so it's easy to sample.' [Yes, but certainly varies in time...if more smoothly than many other traits] #bog13
332134546348843008 May 8 10:07 @genetisaur TE: cohort of 250k samples w/ height from multiple studies. qq-plot you don't really want to have: genomic control = 1.98 #bog13
332134660484235266 May 8 10:07 @ewanbirney Esko talking about the mother of all meta analysis height. Starts with a bad qq plot. Stratification? #bog13
332134688481214464 May 8 10:07 @bullymom2 TE shows some nasty qq plots. lambda=1.98! N=250K. Did they do anything to correct for this? #bog13
332134872791535616 May 8 10:08 @GenomeNathan Esko: We want neither 45-degree QQ plots (like Daly showed), nor oddly curved stairsteps (as he shows). #bog13 #unrulylambda
332134992912203776 May 8 10:08 @girlscientist All I need is "CLIA-certified" to get bingo. Hear that, @dgmacarthur? #bog13
332135112965763072 May 8 10:09 @bullymom2 TE: high lambda due to popn stratification and possibly polygenic inheritance that shifts the distn of the stats #bog13
332135224479711232 May 8 10:09 @mgymrek AB good to see replication of eqtls in independent dataset. Hope to see more of this in qtl studies #bog13
332135230259490816 May 8 10:09 @girlscientist Tonu Esko walking us through issues around gigantic (!) GWAS for human height. "Here is a Q-Q plot you don't want to see…." #bog13
332135323389800450 May 8 10:10 @klmr Today on #bog13: unreadable slides.
332135480747507712 May 8 10:10 @bullymom2 TE: EMMAX adjusts for popn structure and relatedness (Kong 2010?) #bog13
332135522598256641 May 8 10:10 @bullymom2 RT @klmr: Today on #bog13: unreadable slides.
332135559172587520 May 8 10:11 @GenomeNathan Esko: to deflate lambda, used EMMAX to neutralize population structure; leaves complex heritability as likely culprit. #bog13
332135782372499457 May 8 10:11 @genetisaur TE: After correcting for population structure for height in cohort of ~40k, GC still wildly inflated. Polygenic inheritance likely #bog13
332135817743060993 May 8 10:12 @PosterDavid @dgmacarthur sth very wrong with this as it is based on assumption that Genetics of SZ=Genetic of height. I predict is an artifact #bog13
332135868674498560 May 8 10:12 @ewanbirney Mixed model analysis to pull out stratification. I am sure we will more of this from Magnus Nordborg on plants. #bog13
332136193657548801 May 8 10:13 @bullymom2 agree MT @PosterDavid: @dgmacarthur sth wrong w/ this. based on assumption that Genetics of SZ=Genetic of t. I predict an artifact #bog13
332136698626576384 May 8 10:15 @genetisaur TE: Genome-wide significant height SNPs predicted to explain 16% of variance #bog13
332136961118699520 May 8 10:16 @luke__ward M.Daly and R.Bleckman both talked about rare var. tests w/ WGS. MD shows how difficult to even get signal for NS coding; need prior. #bog13
332137232691507201 May 8 10:17 @mason_lab #bog13 the height-based SNVs are enriched in genes for skeletal muscle and cartilage
332137273741164544 May 8 10:17 @tuuliel Esko: understanding biology of height GWAS hits. expression arrays are nice but you need eQTLs to pinpoint causal mechanisms #bog13
332137289180401664 May 8 10:17 @girlscientist Good q. Esko: does increasing the number of loci [assoc'd w/height] identify more biology? Says more pathways implicated. You decide. #bog13
332137374005993472 May 8 10:18 @bullymom2 I wld like to ask why don't we look at genes that we know cause very tall or short stature to look for SNPs that have modest effect? #bog13
332137580239933440 May 8 10:19 @ewanbirney Height gwas implicates... Skeletal biology, joints and cartilage. Not a surprise but great to see. #bog13
332137590096535552 May 8 10:19 @anderson_carl TE shows that with big N, one no longer expects majority of SNPs to be under null. Not stratification but polygenic effect. #bog13
332138718938927104 May 8 10:23 @bullymom2 I think that heritability is misunderstood. Our estimates are not very good. It depends on context. why always harp on heritability? #bog13
332138884123222016 May 8 10:24 @tuuliel Multiple independent association at the same locus is what we in eQTLs too esp w seq data. Will be a challenge for the future #bog13
332139213988450304 May 8 10:25 @mucociliary Testing neural tube defect genes in fish? You guys should try frog! #bog13
332139278127742976 May 8 10:25 @srslyscience @srslyscience is at #bog13! But unlike most of the other press, you probably *don't* want us to blog/tweet about your research :)
332139290698055681 May 8 10:25 @bullymom2 TE claimed large samples with 'easy' phenotype have more power. disagree. careful phenotyping increases power in small sample! #bog13
332139648304414720 May 8 10:27 @ewanbirney I agree with esko that the proportion of heritability explained in height is getting "respectable" 20% (loci) or 38% (top 1%) #bog13
332140100962091008 May 8 10:29 @anderson_carl @bullymom2 in general I absolutely agree, but height is actually one trait where we have a fairly consistent heritability estimate. #bog13
332140583290286081 May 8 10:31 @luke__ward MD ctrlled per-gene mutation rate. RB ranked PWMs by rare variant burden case/control but faced Qs abt control for per-motif mut rate #bog13
332140606715486208 May 8 10:31 @konrad_jk Only at #bog13 would I be sitting in between 2 conversations about intersecting with BED files...
332141798627606528 May 8 10:35 @Ubercoat The next block of talks features NHGRI's own Steve Parker on stretch enhancers. Those of you who can, check it out - great stuff. #bog13
332141969721659392 May 8 10:36 @silParacchini RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332144629334040576 May 8 10:47 @ewanbirney This talk not tweet able ... #bog13
332144761169379329 May 8 10:47 @konrad_jk Dead bird on this talk. Twitter break! #bog13
332145347268861952 May 8 10:49 @obahcall @konrad_jk hoping that no birds were harmed for the no tweet talks. how does the dead bird look on the feed, at peace? #bog13
332145460649279488 May 8 10:50 @evolvability @obahcall @konrad_jk bird looks upside down and sad #bog13
332145491959750656 May 8 10:50 @girlscientist .@Magda_Skipper & I are working out grant for GWAS for presentation competence, including working clicker/pointer. Funding welcome. #bog13
332145532040515586 May 8 10:50 @konrad_jk @obahcall Not especially. It actually looks like it was shot :-( #bog13
332146057557463041 May 8 10:52 @girlscientist @konrad_jk @obahcall or died of a broken heart, it looks like out here. Every time a speaker doesn't allow tweeting…. #bog13
332146079229411328 May 8 10:52 @Magda_Skipper We can now find genes by searching patents on Google... #bog13
332146208929898496 May 8 10:53 @timspector “@ewanbirney: new Height gwas implicates... Skeletal biology, joints and cartilage. Not a surprise #bog13” and wnt and tgf paths as in OA+Op
332146292857921538 May 8 10:53 @obahcall @konrad_jk @evolvability may the no tweet bird be at peace, with our thanks for its service to #bog13 tweeters
332146331739123712 May 8 10:53 @notSoJunkDNA @obahcall @konrad_jk I hope it looks like a Dead parrot http://en.m.wikipedia.org/wiki/Dead_Parrot_sketch #bog13
332146443332755458 May 8 10:54 @evolvability RT @obahcall: @konrad_jk @evolvability may the no tweet bird be at peace, with our thanks for its service to #bog13 tweeters
332146579584720898 May 8 10:54 @evolvability RT @notSoJunkDNA: @obahcall @konrad_jk I hope it looks like a Dead parrot http://en.m.wikipedia.org/wiki/Dead_Parrot_sketch #bog13
332147210936528896 May 8 10:57 @obahcall No coincidence, this first closed talk after break is first time I can get a tweet through challenged grace wifi #bog13
332147484224806913 May 8 10:58 @bioinfosm @SeqComplete @JChrisPires @Magda_Skipper @erlichya tweetedtimes,still automated/clunky, may have better layout http://tweetedtimes.com/#!/search/%23BOG13/en #BOG13
332148252323479554 May 8 11:01 @bullymom2 Actually find genes we already know about. RT @Magda_Skipper: We can now find genes by searching patents on Google... #bog13
332148284728672256 May 8 11:01 @wrmccombie Scientistgirl - I think we have learned that the N for presentation skills will be WAY too low to find anything, #bog13
332148468124622848 May 8 11:02 @girlscientist @wrmccombie :) rare variant sequencing then! Extremes at each end of distribution. #bog13
332148497652539392 May 8 11:02 @girlscientist During the twitter break, top 3 lies I was told by scientists yesterday about twitter. #bog13
332148560936202240 May 8 11:02 @girlscientist 1. "Watching someone tweet a conference really takes the allure away." [um…what?] #bog13
332148616925954048 May 8 11:02 @girlscientist 2. “I read in a newspaper that twitter is the modern equivalent of mumbling so that’s why I don’t do it.” #bog13
332148662270562305 May 8 11:03 @klmr RT @wrmccombie: Scientistgirl - I think we have learned that the N for presentation skills will be WAY too low to find anything, #bog13
332148680910057474 May 8 11:03 @girlscientist 3. “Why do you bother? It’s not like anyone reads twitter anyway.” #bog13
332149108783595520 May 8 11:04 @bullymom2 increasing your number of tests to find things decreases your power and increases type I error. #bog13
332149234746916864 May 8 11:05 @notSoJunkDNA RT @girlscientist: 3. “Why do you bother? It’s not like anyone reads twitter anyway.” #bog13
332149590667165697 May 8 11:06 @bendesky RT @dgmacarthur: Mark Daly: all current treatments for psychiatric disease rely on accidental discoveries in the 1950s. #bog13
332149853360619521 May 8 11:07 @wrmccombie @girlscientist Extremes are easy to find! :) #bog13
332149885606440961 May 8 11:07 @timspector @obahcall Damn- my blocking tactics failed! #bog13
332149990430498816 May 8 11:08 @konrad_jk Low-hanging fruit is being added to the #bingo card http://www.interpretome.com/#bingo #bog13
332149998642929664 May 8 11:08 @bendesky RT @dgmacarthur: MD: but new schizophrenia GWAS - now 34K cases, 46K controls - reveal over 100 genome-wide significant loci! #bog13
332150091945222146 May 8 11:08 @ewanbirney And a big twitter welcome to @dgmacarthur to the #bog13 podium :) ....
332150197859790848 May 8 11:09 @noahWG RT @girlscientist: 3. “Why do you bother? It’s not like anyone reads twitter anyway.” #bog13
332150242025807872 May 8 11:09 @konrad_jk .@dgmacarthur up next at #bog13 on massive scales of sequencing
332150249953046528 May 8 11:09 @obahcall @konrad_jk good. and extremes of phenotype? #bog13
332150398087462914 May 8 11:10 @westr RT @dgmacarthur: Mark Daly: all current treatments for psychiatric disease rely on accidental discoveries in the 1950s. #bog13
332150476516753408 May 8 11:10 @bendesky RT @dgmacarthur: MD: de novo LoF mutations are enriched in low-IQ autism cases, but not in normal-IQ cases. Very interesting… #bog13
332150580933955584 May 8 11:10 @girlscientist Next speaker is the awesome @dgmacarthur. Spoiler alert: expect unicorns and rainbows. Also loss of function. #bog13
332150625322287104 May 8 11:10 @drbachinsky RT @dgmacarthur: Mark Daly: all current treatments for psychiatric disease rely on accidental discoveries in the 1950s. #bog13
332150673862963200 May 8 11:11 @OmicsOmicsBlog RT @girlscientist: During the twitter break, top 3 lies I was told by scientists yesterday about twitter. #bog13
332150680729026561 May 8 11:11 @tuuliel @konrad_jk Next year's plenary: "Genome sequence variation and functional characterization of low-hanging fruits" #bog13
332150684935917569 May 8 11:11 @OmicsOmicsBlog RT @girlscientist: 1. "Watching someone tweet a conference really takes the allure away." [um…what?] #bog13
332150696084385792 May 8 11:11 @OmicsOmicsBlog RT @girlscientist: 2. “I read in a newspaper that twitter is the modern equivalent of mumbling so that’s why I don’t do it.” #bog13
332150708335943680 May 8 11:11 @OmicsOmicsBlog RT @girlscientist: 3. “Why do you bother? It’s not like anyone reads twitter anyway.” #bog13
332150711351648256 May 8 11:11 @bullymom2 Daniel G MacArthur on consistent calling in genomes using joint calling. #bog13
332150925051445248 May 8 11:12 @OmicsOmicsBlog @girlscientist Easy enough to show the data -- search for #bog13 & show all the retweets
332150957938970624 May 8 11:12 @konrad_jk DGM calling for down with silos of data, joint analysis increases power. Silo themes of @GholsonLyon's talk at #fogm13, was it? #bog13
332151070937710592 May 8 11:12 @INTEGRALLdb Think I'll follow this tag #bog13
332151158024048641 May 8 11:13 @bullymom2 DGM: joint calling across 10's of 1000s samples? 10 Gb per genome. computing memory limited for processing. #bog13
332151167222161409 May 8 11:13 @anderson_carl @dgmacarthur: most sequencing data we generate is in silos. Very true. Its a real pain getting analysis ready data out of dbGap #bog13
332151391516782593 May 8 11:13 @girlscientist Most of the vast amounts of sequence data we've generated are silo-ed, points out @dgmacarthur. Goal data consistent b/n projects. #bog13
332151395815936001 May 8 11:13 @obahcall Tweeting again at #bog13 with @dgmacarthur telling us how to make sense of massive sequencing datasets
332151452569042944 May 8 11:14 @bullymom2 DGM: solve problem with reduced BAM files. remove all the homozygous regions to reduce amount of data. #bog13
332151777598255104 May 8 11:15 @girlscientist .@dgmacarthur group developing compression method for BAM files. Clearly homozygous regions made into one synthetic read. #bog13
332151798339104768 May 8 11:15 @GholsonLyon I wonder how much variability the alignment methods introduce into these BAM files upstream of this analysis? #bog13
332152029025824768 May 8 11:16 @tuuliel @dgmacarthur "after 6 months of software engineering ... and swearing" #bog13
332152276636545024 May 8 11:17 @evolvability RT @GholsonLyon: I wonder how much variability the alignment methods introduce into these BAM files upstream of this analysis? #bog13
332152295884210177 May 8 11:17 @bullymom2 DGM: tested on 26K exomes. joint calling reduces batch effects. variation drvien by ancestry, as one wld expect. calling power up. #bog13
332152303824039936 May 8 11:17 @obahcall DM: Joint calling on 26k exomes, with collection samples drawing on range disease specific consortium studies #bog13
332152325701517313 May 8 11:17 @ewanbirney @girlscientist @dgmacarthur curious about whether Daniel and mark looked into aggressive CRAM quality score compression as well... #bog13
332152344903049217 May 8 11:17 @evolvability @GholsonLyon are you baiting me ;) #bog13
332152443662114816 May 8 11:18 @bullymom2 DGM: lose some sites and get others. hopefully what is 'missed' were calling errors. #bog13
332152811762618369 May 8 11:19 @girlscientist .@dgmacarthur now has largest ever collection of human protein-coding gneentic variants. 44% of 1.5M seen only once. #bog13
332152869874696193 May 8 11:19 @ewanbirney Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332152939403702272 May 8 11:20 @evolvability @ewanbirney @girlscientist @dgmacarthur and @illumina's new scaled qualities they are contributing to 1000G project #bog13
332153035012861953 May 8 11:20 @tuuliel @dgmacarthur Largest catalogue of codian variants. 1.5M missense variants, 98% at <1% frequency. #bog13
332153089958236160 May 8 11:20 @bullymom2 DGM: capture regions may not be same across studies, so comparing one individual to ESP data may not be completely accurate. #bog13
332153136640823296 May 8 11:20 @nextgenseek “@ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13” MacArthur
332153276688637952 May 8 11:21 @GaiaTek RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332153316429660161 May 8 11:21 @bullymom2 DGM: joint calling has same capture regions and can get better estimates of rare allele freqs #bog13
332153380187287552 May 8 11:21 @CampOther RT @dgmacarthur: MD: de novo LoF mutations are enriched in low-IQ autism cases, but not in normal-IQ cases. Very interesting… #bog13
332153664477200384 May 8 11:22 @00livier DM: joint calling exomes of a patient together with 26000 exomes reduces the number of uniques SNPs from~600 to 67 ! #bog13
332153744483553281 May 8 11:23 @salisburymw Dear #bog13, I need you to stop being so awesome! This Twitter feed is killing my productivity. Wish I were there!
332153930647744513 May 8 11:24 @westr RT @00livier: DM: joint calling exomes of a patient together with 26000 exomes reduces the number of uniques SNPs from~600 to 67 ! #bog13
332153971307327489 May 8 11:24 @bendesky RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332153991574192129 May 8 11:24 @MTomasson RT @dgmacarthur: MD: de novo LoF mutations are enriched in low-IQ autism cases, but not in normal-IQ cases. Very interesting… #bog13
332154154720047104 May 8 11:24 @drbachinsky RT @00livier: DM: joint calling exomes of a patient together with 26000 exomes reduces the number of uniques SNPs from~600 to 67 ! #bog13
332154178279469057 May 8 11:25 @anderson_carl DM: joint calling case and control exomes gives accurate pop freq estimates for Mendelian disease vars #bog13
332154183081918464 May 8 11:25 @girlscientist Final @dgmacarthur project: Finns carry proportionally more LOF variants than some other populations; looking at phenotypes. #bog13
332154285691400192 May 8 11:25 @tuuliel Finland was inhabited 10K years ago, not 2K...but for some reason the idea that was proven wring in the 70s is still alive :-/ #bog13
332154371825627137 May 8 11:25 @00livier DM: Finns are have enriched variants at MAF 0.5-5%: bottleneck ! #bog13
332154573710049280 May 8 11:26 @leonidkruglyak RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332154768640327681 May 8 11:27 @girlscientist Of course, great talk by @dgmacarthur even if he didn't mention CLIA. Did get bottleneck! #bog13
332154905215246338 May 8 11:27 @bullymom2 Q: do you lose power for the extremely rare variants that can't be found in the mass of genomes in joint calling? #bog13
332155093761814528 May 8 11:28 @bullymom2 Now wifi overburdened in lounge. #bog13 grrr
332155227404918784 May 8 11:29 @bioinfosm #GATK multi-sample? MT @00livier DM: joint calling #exomes of patient with 26000 exomes reduces # of uniques SNPs ~600 to 67 ! #bog13 @westr
332155407864827904 May 8 11:29 @bullymom2 DGM claims that if you can find a rare variant in one exome, shld find in joint calling #bog13
332155409324457984 May 8 11:29 @djjgresham @girlscientist I'm listening. Please keep it going. #bog13
332155472624889856 May 8 11:30 @Ichnologist RT @girlscientist: 3. “Why do you bother? It’s not like anyone reads twitter anyway.” #bog13
332155626098671617 May 8 11:30 @klmr MT “Thank you very much to the organisers for the opportunity to tweet this talk” – protip: cut empty phrases in talks. #bog13
332155647674167300 May 8 11:30 @obahcall Stephen Parker on stretch enhancers associated with type 2 diabetes #bog13
332155736815697920 May 8 11:31 @bullymom2 Stephen Parker in type 2 diabetes and stretch enhancers #bog13
332156256137654272 May 8 11:33 @bullymom2 SP: shows 9 encode cell types. pancreatic islet chromatin landscape. integrated their data with encode data #bog13
332156363344064512 May 8 11:33 @nextgenseek RT @tuuliel: @dgmacarthur "after 6 months of software engineering ... and swearing" #bog13
332156396713947138 May 8 11:33 @nextgenseek RT @tuuliel: @dgmacarthur Largest catalogue of codian variants. 1.5M missense variants, 98% at <1% frequency. #bog13
332156511533019137 May 8 11:34 @gingi0 Abstract book PDF FTW. #bog13
332156534803005440 May 8 11:34 @bullymom2 SP: proinsulin, glucose and T2D SNPs are enriched in islet enhancer regions #bog13
332157166301626369 May 8 11:36 @bullymom2 SP: found INS had lots of big enhancers (stretch enhancers) relative to distn of enhancer size across genome (I think) #bog13
332157195355574272 May 8 11:37 @illumina Great tweeting from #bog13 cc @ewanbirney @girlscientist @obahcall @dgmacarthur @bullymom2 @evolvability @erlichya and others
332157291883270144 May 8 11:37 @illumina RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332157321713160192 May 8 11:37 @westr RT @illumina: Great tweeting from #bog13 cc @ewanbirney @girlscientist @obahcall @dgmacarthur @bullymom2 @evolvability @erlichya and others
332157342479159297 May 8 11:37 @bullymom2 SP: big enhancers are linked to cell-specific gene expression. cool. #bog13
332157352398696449 May 8 11:37 @westr RT @obahcall: Stephen Parker on stretch enhancers associated with type 2 diabetes #bog13
332157384564813824 May 8 11:37 @westr RT @bullymom2: SP: found INS had lots of big enhancers (stretch enhancers) relative to distn of enhancer size across genome (I think) #bog13
332157391879667713 May 8 11:37 @DNADigest RT @dgmacarthur: Mark Daly: all current treatments for psychiatric disease rely on accidental discoveries in the 1950s. #bog13
332157461890994176 May 8 11:38 @DNADigest RT @cshperspectives: Daly: GWAS has failed. Long live GWAS! #bog13
332157926376603648 May 8 11:39 @sheilaacrowe RT @00livier: DM: joint calling exomes of a patient together with 26000 exomes reduces the number of uniques SNPs from~600 to 67 ! #bog13
332158020157046784 May 8 11:40 @bullymom2 SP: found association between GWAS SNPs and stretch enhancers for traits with cell specificity #bog13
332158116240162816 May 8 11:40 @nextgenseek RT @illumina: Great tweeting from #bog13 cc @ewanbirney @girlscientist @obahcall @dgmacarthur @bullymom2 @evolvability @erlichya and others
332158149505196032 May 8 11:40 @Erika_Check RT @girlscientist: @dgmacarthur now has largest collection of human protein-coding genetic variants. 44% of 1.5M seen only once. #bog13
332158221982785536 May 8 11:41 @luke__ward S. Parker: mapping enhancers in panc islets. Longer ("stretch") enhancers >3kb are more important, by expression, gwas/GO enrichment #bog13
332158439134474240 May 8 11:41 @konrad_jk Enrichment of GWAS hits in <reg feature> is a common theme here. Having done this, I really want to know what their background is #bog13
332158491223523328 May 8 11:42 @leonidkruglyak Why hasn't CSHL wifi been upgraded, @cshlmeetings? #bog13
332158765472288768 May 8 11:43 @timspector #bog13 ST shows RA gwas SnPs are highly enriched for regions of large enhancers which have cell specific effects and could explain immunity
332158795184758784 May 8 11:43 @bullymom2 SP: evidence that stretch enhancer activity is cell type specific. #bog13
332158928899145731 May 8 11:43 @notSoJunkDNA Yes! WHY??? RT “@leonidkruglyak: Why hasn't CSHL wifi been upgraded, @cshlmeetings? #bog13”
332158930698506244 May 8 11:43 @bullymom2 How long does an enhancer need to be to be considered a stretch enhancer? What is the distn of size just for stretch enhancers? #bog13
332159024881598464 May 8 11:44 @GenomeBiology RT @leonidkruglyak: Why hasn't CSHL wifi been upgraded, @cshlmeetings? #bog13
332159223171530753 May 8 11:45 @eperlste RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332159290158747649 May 8 11:45 @fabiomarroni RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332159326573715456 May 8 11:45 @bullymom2 SP: possible that big enhancers are more amenable to drug treatment (recent CELL pubs) #bog13
332159488192819201 May 8 11:46 @firas RT @ewanbirney: Height gwas implicates... Skeletal biology, joints and cartilage. Not a surprise but great to see. #bog13
332159718288138240 May 8 11:47 @konrad_jk Background distro is crucial: Of course they're enriched, they're close to genes! Maybe they're correcting, but worth a mention. #bog13
332160085591740419 May 8 11:48 @anderson_carl Enhancers are definitely the champion of all functional annotation marks at #bog13. Discussed in several great talks already.
332160109708984322 May 8 11:48 @bullymom2 #bog13 Q: is it possible that stretch enhancers are actually a group of smaller enhancers that work together? A: haven't looked yet.
332160607463809026 May 8 11:50 @robin_andersson Good Qs to Parker: single long "stretch" enhancer or a battery of multiple small ones? #bog13
332160781862977536 May 8 11:51 @michaelhoffman @notSoJunkDNA @leonidkruglyak @cshlmeetings I went to @NipsConference last year. Many more attendees, WiFi worked fine. #bog13
332160850196570114 May 8 11:51 @obahcall SP: Francis Collins lab looking for postdoc, grads send along your applications! (Lots great projects, stretch enhancers and beyond) #bog13
332160857268170752 May 8 11:51 @konrad_jk Another dead bird for the last talk before lunch. Let's see some irrelevant banter! #bog13
332160958745169920 May 8 11:51 @ewanbirney Martha Bulyk asks the question I wanted to - are these stretch enhancers really 4 or 5 enhancers together #bog13
332161066412933122 May 8 11:52 @eperlste RT @illumina: Great tweeting from #bog13 cc @ewanbirney @girlscientist @obahcall @dgmacarthur @bullymom2 @evolvability @erlichya and others
332161499609067520 May 8 11:54 @ChaunceyGrattan @ewanbirney @robin_andersson and what did SP say??? #bog13
332161871144681472 May 8 11:55 @peerinbiotech "All I need is "CLIA-certified" to get bingo. Hear that, ... #bog13" see conversation by @girlscientist at http://peerin.co/WKwm
332162248770461697 May 8 11:57 @JoseMullor RT @dgmacarthur: Mark Daly: all current treatments for psychiatric disease rely on accidental discoveries in the 1950s. #bog13
332162307897585665 May 8 11:57 @konrad_jk @luke__ward Those are good approaches! But only good for relative enrichment. Global is hard to measure #bog13
332162383801888769 May 8 11:57 @bioinfosm @dgmacarthur @00livier am sure u'll share slides at some point :) .. but curious on time/compute metrics; saving 26k BAM files!! #BOG13
332162394564460547 May 8 11:57 @bullymom2 SP hasn't looked yet. RT @ChaunceyGrattan: @ewanbirney @robin_andersson and what did SP say??? #bog13
332162491767459841 May 8 11:58 @GenomeBiology RT @ewanbirney: Martha Bulyk asks the question I wanted to - are these stretch enhancers really 4 or 5 enhancers together #bog13
332162728561098752 May 8 11:59 @DNADigest RT @nextgenseek: “@ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13” MacArthur
332162762287484928 May 8 11:59 @ispiyou RT @anderson_carl: Enhancers are definitely the champion of all functional annotation marks at #bog13. Discussed in several great talks already.
332163043482009601 May 8 12:00 @obahcall As the next closed talk starts, taking a moment of silence and appreciation for the no tweet bird, who fell for the lack of a star #bog13
332163160880594946 May 8 12:00 @bioinfosm MT @bullymom2 @dgmacarthur claims that if you can find a rare variant in one exome, shld find in multi-sample calling #bog13
332163406188646401 May 8 12:01 @amfoes RT @illumina: Great tweeting from #bog13 cc @ewanbirney @girlscientist @obahcall @dgmacarthur @bullymom2 @evolvability @erlichya and others
332163780052131842 May 8 12:03 @drchriscole RT @ewanbirney: Check out VEP by Fiona Cunningham et al @ensembl poster number 64 today #bog13 and...
332164539955171329 May 8 12:06 @bioinfosm agree on multi-sample calling MT @bullymom2: @dgmacarthur lose some sites get others *hopefully* what is 'missed' were calling errors #bog13
332164738391883776 May 8 12:06 @anderson_carl @dgmacarthur can you tell me what a ‘nasty bottleneck’ is? Can one get ‘nice bottlenecks’? I see a new pop gen research area here #bog13
332165339305623552 May 8 12:09 @EduEyras RT @bullymom2: SP: big enhancers are linked to cell-specific gene expression. cool. #bog13
332165908397178880 May 8 12:11 @benoitbruneau @bullymom2 I'm not sure that's really generalizable. #bog13
332166732569518080 May 8 12:14 @gtyrelle RT @00livier: DM: joint calling exomes of a patient together with 26000 exomes reduces the number of uniques SNPs from~600 to 67 ! #bog13
332167266596712448 May 8 12:17 @Ubercoat @bullymom2 I believe the cutoff for stretch enhancers is anything > 3 kb #bog13
332167915828813826 May 8 12:19 @ispiyou @girlscientist i am literally glued to #bog13 feed
332168110385790976 May 8 12:20 @ribozyme Come and see my poster (no. 69) today at #bog13: Scalable and accurate pedigree-based variant calling allows de novo mutation ID
332168891134533633 May 8 12:23 @peerinbiotech "3. “Why do you bother? It’s not like anyone reads twitter anyway.” #bog13" see conversation by Chris Gunter at http://peerin.co/CvAz
332169003009179651 May 8 12:23 @lexnederbragt RT @GholsonLyon: I wonder how much variability the alignment methods introduce into these BAM files upstream of this analysis? #bog13
332169346782724096 May 8 12:25 @rtgnews At #bog13? Come see poster 69 showing how our scalable family caller accurately identifies variants and de novo mutations from NGS data
332170888403365889 May 8 12:31 @Awesomics Biology of Genomes #BoG13 - http://meetings.cshl.edu/meetings/2013/genome13.shtml MT @erlichya All tweets in this Google Doc http://bit.ly/15BR1KP auto updated every 1min
332171121535369217 May 8 12:32 @Genome10K RT @illumina: Great tweeting from #bog13 cc @ewanbirney @girlscientist @obahcall @dgmacarthur @bullymom2 @evolvability @erlichya and others
332171176606576642 May 8 12:32 @trutane RT @Awesomics: Biology of Genomes #BoG13 - http://meetings.cshl.edu/meetings/2013/genome13.shtml MT @erlichya All tweets in this Google Doc http://bit.ly/15BR1KP auto updated every 1min
332173477966655488 May 8 12:41 @scottjcain Stop by our GMOD in the Cloud poster (#43) to chat about easier ways to get your data out there @gmodproject #bog13 http://gmod.org/wiki/Cloud
332173725610938371 May 8 12:42 @sheacshl RT @erlichya: Remember these old times when internet was not around? Come to CSHL's Grace auditorium to experience them again! #bog13 #TweetViaPigeons
332173820754530304 May 8 12:43 @bionanogenomics RT @OmicsOmicsBlog: 1 contig Streptomyces: @pacbio + @illumina seq & @bionanogenomics optical mapping; #bog13 poster #46 (plus spider mite, wheat, human)
332174837604810752 May 8 12:47 @jameslz RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332178208927653888 May 8 13:00 @prometheusgreen RT @Awesomics: Biology of Genomes #BoG13 - http://meetings.cshl.edu/meetings/2013/genome13.shtml MT @erlichya All tweets in this Google Doc http://bit.ly/15BR1KP auto updated every 1min
332178219329548289 May 8 13:00 @bullymom2 does #bog13 have any air conditioning at all? I can't be the only uncomfortable scientist.
332182634904039425 May 8 13:18 @erlichya @Erika_Check wrote a great feature in Nature today about the work in my lab. http://bit.ly/10bi8HZ, featuring @mgymrek and others. #bog13
332184945122488321 May 8 13:27 @bionanogenomics Come see Han Cao (Founder/CSO) present poster #46 @cshlmeetings - new human de novo genome map and whole genome analysis using Irys #bog13
332185635878211584 May 8 13:30 @lilbabe342 RT @dgmacarthur: MD: but new schizophrenia GWAS - now 34K cases, 46K controls - reveal over 100 genome-wide significant loci! #bog13
332186603684511744 May 8 13:33 @nomad421 RT @dgmacarthur: MD: de novo LoF mutations are enriched in low-IQ autism cases, but not in normal-IQ cases. Very interesting… #bog13
332190412905250816 May 8 13:49 @mgymrek Fun running adventures at #bog13 day 1: http://app.strava.com/activities/52848619, day 2: http://app.strava.com/activities/53061340. Who's up for tomorrow's adventure?
332190493700132865 May 8 13:49 @robin_andersson RT @anderson_carl: Enhancers are definitely the champion of all functional annotation marks at #bog13. Discussed in several great talks already.
332190681386872832 May 8 13:50 @OmicsOmicsBlog #bog13 #46 Rapid Structural Variation Detection & De Novo Assembly in Human and Complex Genomes Using Extremely Long Single-Molecule Imaging
332191337900281857 May 8 13:52 @NEdgingtonPhD Grading & trying to keep up/ follow the #bog13 tweets!
332191456699752448 May 8 13:53 @erlichya 2pm today: come to Poster 86 to talk more on how to hack to genomes (and banks) with @mgymrek and myself. #Bog13
332191737957187584 May 8 13:54 @danrdanny RT @notSoJunkDNA: Yes! WHY??? RT “@leonidkruglyak: Why hasn't CSHL wifi been upgraded, @cshlmeetings? #bog13”
332192261028864001 May 8 13:56 @danrdanny @mgymrek I was going to run this trail tomorrow morning! I'm starting midway from the hotels. What are you thinking tomorrow? #bog13
332193508020592640 May 8 14:01 @bioinfosm MT @bionanogenomics Han Cao (Founder/CSO) present #46 @cshlmeetings - new human de novo genome map & whole genome analysis using Irys #bog13
332194538204585985 May 8 14:05 @bmahersciwriter RT @erlichya: @Erika_Check wrote a great feature about the work in my lab. http://bit.ly/10bi8HZ, featuring @mgymrek and others. #bog13
332195558653566976 May 8 14:09 @Magda_Skipper Parker: super enhancers IDed in cancer and mouse; stretch enhancers in normal human cells #bog13
332195793832402944 May 8 14:10 @Magda_Skipper The other day I read about a g who lived without Internet for a year; am reliving the experience in Grace auditorium today #bog13
332195923956486144 May 8 14:10 @smithmkt Don't I know it!: MT: #bog13 . This meeting does not mess around - the abstract book is the size of a hotel bible. http://t.co/gNHlxeQMgi
332198961689542657 May 8 14:22 @konrad_jk The second poster hall seems to be right here somewhere... #bog13 http://t.co/b87SJWlHsS
332199159430004736 May 8 14:23 @lpipes Cold spring harbor laboratory #bog13 http://t.co/iEPP5OB7mp
332199473893740545 May 8 14:25 @WiringTheBrain RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332199732493578240 May 8 14:26 @notSoJunkDNA Long Line at the PRDM9 poster ( #20). PRDM9 rocks!!! #bog13
332200168994779136 May 8 14:27 @WiringTheBrain Loving the #bog13 tweets - sounds like some awesome science and it's nice to hear the highlights
332200245800869888 May 8 14:28 @pauldennyuk RT @timspector: #bog13 ST shows RA gwas SnPs are highly enriched for regions of large enhancers which have cell specific effects and could explain immunity
332200312171528192 May 8 14:28 @spreadscienced RT @ewanbirney: Height gwas implicates... Skeletal biology, joints and cartilage. Not a surprise but great to see. #bog13
332200412230852608 May 8 14:28 @spreadscienced RT @mason_lab: #bog13 increased rate of LOF alleles in most neuro disorders. More soon from Blekhman, SNVs~ neural tube defects in the noncoding areas
332200476177203200 May 8 14:29 @spreadscienced RT @notSoJunkDNA: Long Line at the PRDM9 poster ( #20). PRDM9 rocks!!! #bog13
332201752898203648 May 8 14:34 @spreadscienced Inside BoGs Poster session #BoG13 #nygenome http://yfrog.us/ccx7dwmezaijmlxeprbimueyz
332204403270496257 May 8 14:44 @KentsisResearch RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332208270800453632 May 8 14:59 @cshperspectives Paging @cshlmeetings... RT @emckiernan13: @usethespacebar Would love the numbers on the 1988 Cold Spring Harbor genome meeting #bog13
332224148401176576 May 8 16:03 @klmr RT @notSoJunkDNA: #BOG13 Mike Snyder describes the next round of #ENCODE. Dan Graur is probably sharpening his pencils (or his sword)
332224503910371328 May 8 16:04 @DNAmlin RT @notSoJunkDNA: #BOG13 Mike Snyder describes the next round of #ENCODE. Dan Graur is probably sharpening his pencils (or his sword)
332224737717665793 May 8 16:05 @obahcall @notSoJunkDNA @konrad_jk Hopefully then the bird is not dead, it is just stunned, it is resting... #bog13
332225281727266816 May 8 16:07 @aylwyn_scally Thought my feed was going to get swamped by #bog13 tweets but thanks to the crummy WiFi there, not a problem!
332227241889120256 May 8 16:15 @danrdanny Would it have been crazy to do the encode tutorial in the auditorium? #bog13
332227631955206144 May 8 16:16 @ngsgene #bog13 Interesting talks, wifi, air conditioning & dead bird issues Neat tweets @bioinfosm @bullymom2 @obahcall @dgmacarthur #bioinformatics
332227990790475777 May 8 16:18 @pop_gen_JED @obahcall @notSoJunkDNA @konrad_jk Uhh... It looks pretty dead. #bog13 "I know a dead parrot when I see one."
332229144463151104 May 8 16:22 @Ubercoat There are a LOT of high-quality posters to take in at #bog13 . In related news, I may have given myself poster poisoning.
332229518578302977 May 8 16:24 @00livier Lots of nice ggplots and other graphs on posters. Wish authors could publish the R code behind the plots. #bog13
332229927078350849 May 8 16:26 @notSoJunkDNA Great idea! RT @00livier: Lots of nice ggplots and other graphs on posters. Wish authors could publish the R code behind the plots. #bog13
332229974138429440 May 8 16:26 @obahcall @pop_gen_JED @notSoJunkDNA @konrad_jk No no he is simply resting... Lovely plumage... #bog13
332230548875517953 May 8 16:28 @klmr RT @00livier: Lots of nice ggplots and other graphs on posters. Wish authors could publish the R code behind the plots. #bog13
332230652353191936 May 8 16:28 @rnomics RT @EncodeDCC: Standing room only at the #ENCODE workshop at #bog13 http://t.co/RAEimRrAHF
332230827415048192 May 8 16:29 @notSoJunkDNA #bog13 biology sounds quite simple when you hear an #encode talk. Not sure it's such a great thing...
332231549774864384 May 8 16:32 @GenomeNathan RT @notSoJunkDNA: #bog13 biology sounds quite simple when you hear an #encode talk. Not sure it's such a great thing...
332231879757529089 May 8 16:33 @OmicsOmicsBlog RT @bioinfosm: LOL! MT @notSoJunkDNA #BOG13 Mike Snyder describes the next round of #ENCODE. @DanGraur is probably sharpening his pencils (or his sword)
332233732381630464 May 8 16:41 @bullymom2 The sun is shining on #bog13 wine and cheese. :)
332233995968462849 May 8 16:42 @bioinfosm RT @ngsgene: #bog13 Interesting talks, wifi, air conditioning & dead bird issues Neat tweets @bioinfosm @bullymom2 @obahcall @dgmacarthur #bioinformatics
332237062432493568 May 8 16:54 @PhilVelissariou RT @anderson_carl: Enhancers are definitely the champion of all functional annotation marks at #bog13. Discussed in several great talks already.
332240340830527489 May 8 17:07 @neilhall_uk RT @notSoJunkDNA: #bog13 biology sounds quite simple when you hear an #encode talk. Not sure it's such a great thing...
332241009834614785 May 8 17:10 @Awesomics Circular RNAs: http://www.nature.com/news/circular-rnas-throw-genetics-for-a-loop-1.12513 MT @girlscientist J Salzman: looking for scrambled transcripts in cancer, found circular RNAs #bog13
332246866441953280 May 8 17:33 @pop_gen_JED Speaking of dead #bog13 Twitter bird and Monty Python: Scarlet Macaw genome published. http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0062415
332257261625954304 May 8 18:14 @matthewherper I am at #bog13. I have not tweeted anything about the meeting, but am having fun.
332265393286692865 May 8 18:46 @obahcall RT @pop_gen_JED: @obahcall @notSoJunkDNA @konrad_jk Uhh... It looks pretty dead. #bog13 "I know a dead parrot when I see one."
332265534445981696 May 8 18:47 @obahcall RT @matthewherper: I am at #bog13. I have not tweeted anything about the meeting, but am having fun.
332265866743914497 May 8 18:48 @obahcall RT @pop_gen_JED: Speaking of dead #bog13 Twitter bird and Monty Python: Scarlet Macaw genome published. http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0062415
332268523055357952 May 8 18:59 @harpactocrates RT @00livier: Lots of nice ggplots and other graphs on posters. Wish authors could publish the R code behind the plots. #bog13
332271658373111808 May 8 19:11 @girlscientist The record should reflect that while writing names for session on the board, I publicly shamed Len Pennacchio for refusing tweeting. #bog13
332275322391240704 May 8 19:26 @ewanbirney After much teasing - well justified - I am going for only one question every half session. (Makes sad face). #bog13
332276630955372544 May 8 19:31 @ewanbirney @joe_pickrell Nah ... Rationing is good :). I also have to choose the right talk. #bog13
332277267352928256 May 8 19:34 @leonidkruglyak Len Pennaccio now talking about experimental enhancer discovery in mice at #bog13
332277752520663040 May 8 19:36 @leonidkruglyak But no tweeting. #deadbird #bog13
332278481603944448 May 8 19:38 @AP_Boyle Someone forgot to turn on the video stream... again... #bog13 #wasteofmoney
332279247831973888 May 8 19:42 @ClaudiaKleinman @AP_Boyle I think so... #bog13 #frustrated
332280541560860673 May 8 19:47 @leonidkruglyak Actual birds tweeting away outside. #bog13
332280659869585408 May 8 19:47 @obahcall @leonidkruglyak #simplyresting #bog13
332281499787329536 May 8 19:50 @ewanbirney @konrad_jk @joe_pickrell ;) and now the manolis twins are in. I'm saving my question for Martha's talk on this session... #bog13
332281764791861248 May 8 19:52 @bullymom2 Cosmos Arnold on STARR-seq and function/conservation of enhancers #bog13
332282080329334786 May 8 19:53 @ewanbirney Cosmo : Starr seq from the stark lab on enhancers in flies. - high throughput enhancer screen - clever flip of enhancer position #bog13
332282094690639873 May 8 19:53 @girlscientist First tweetable talk: Cosmas Arnold from Vienna, on enhancer seeking technique called STARR-seq. #bog13
332282162760011776 May 8 19:53 @peerinbiotech "I am at #bog13. I have not tweeted anything about the meeting, but am..." see conversation by Matthew Herper at http://peerin.co/YU8j
332282185044348928 May 8 19:53 @tuuliel Does STARR-seq count as "a new -seq"? New to me at least... #bog13
332282425268916225 May 8 19:54 @elhong Arnold: STARR-seq takes advantage of enhancers working bi-directionally. #bog13
332282632417210368 May 8 19:55 @obahcall Cosmas Arnold on using STARR-seq for genome-wide quantitative enhancer screen #bog13
332282684745318400 May 8 19:55 @robin_andersson Cosmos Arnold on STARR-seq. Simple but clever approach. #bog13
332282787891666944 May 8 19:56 @girlscientist STARR-seq apparently described in Arnold et al. Science 2013 if you want to follow along. #bog13
332282822217846784 May 8 19:56 @bullymom2 CA: STARR-seq picks up both active and silenced enhancers for transcription (I think) #bog13
332283153395884032 May 8 19:57 @ewanbirney V cool. Now have a high throughput enhancer screen that can work on any library - put in 5 species #bog13
332283284342067200 May 8 19:58 @bullymom2 CA: want to know how conserved is enhancer function across species? #bog13
332283399102410753 May 8 19:58 @matthewherper RT @bullymom2: CA: want to know how conserved is enhancer function across species? #bog13
332283415405666304 May 8 19:58 @matthewherper RT @ewanbirney: V cool. Now have a high throughput enhancer screen that can work on any library - put in 5 species #bog13
332283425409093632 May 8 19:58 @ewanbirney Grrr. Good question - cloning random DNA or ecoli DNA into this. Hmmm. This could be this session q ... #bog13
332283434808516608 May 8 19:58 @matthewherper RT @bullymom2: CA: STARR-seq picks up both active and silenced enhancers for transcription (I think) #bog13
332283457034133504 May 8 19:58 @matthewherper RT @girlscientist: STARR-seq apparently described in Arnold et al. Science 2013 if you want to follow along. #bog13
332283751814029313 May 8 19:59 @bullymom2 CA: melanogaster enhancers are conserved functionally and positionally in several mammals. but sequence not so conserved. #bog13
332283852120784897 May 8 20:00 @matthewherper CA evolutionary difference equivalent to human reptilian, 50% of enhancers conserved. (talkin' fly genetics) #bog13
332284177233874945 May 8 20:01 @bullymom2 CA: evidence that active enhancers are under negative selection #bog13
332284372902354945 May 8 20:02 @bullymom2 CA: the negative selection is only on the motif region #bog13
332284419853414400 May 8 20:02 @girlscientist Arnold: negative selection working on specific motifs in active enhancers, resulting in functional conservation over long scales. #bog13
332284948910333952 May 8 20:04 @luke__ward C.Arnold: STARR-seq http://www.sciencemag.org/content/339/6123/1074.abstract 5 fly species; cons of enhancer fxn not always accomp by cons of sequence, except @ motif #bog13
332285049489743877 May 8 20:05 @AP_Boyle Why not the hypothesis that closed enhancers are just not used in the S2 cells? or in this condition? #bog13
332285206927142913 May 8 20:05 @johnhawks The 2k idea came from geneticists who didn't know archaeology. RT @tuuliel: Finland was inhabited 10K years ago, not 2K..#bog13
332285370823745537 May 8 20:06 @leonidkruglyak Wow is Grace packed! #bog13 http://t.co/CYkB6bZzZE
332285483562450945 May 8 20:06 @rtraborn RT @ewanbirney: V cool. Now have a high throughput enhancer screen that can work on any library - put in 5 species #bog13
332286111697227778 May 8 20:09 @leonidkruglyak Only 50% tweetable talks in this #bog13 session. Exactly every other talk. #whataretheodds?
332286449493884928 May 8 20:10 @bullymom2 take it outside, boys #bog13
332286695045218305 May 8 20:11 @danjgaffney #bog13 Can Carlos Bustamante chair all sessions of all future conferences?
332286774309183490 May 8 20:11 @obahcall @leonidkruglyak am enjoying the stars symmetry, and on/off twitter breaks (for us and the birds) #bog13
332286777970786304 May 8 20:11 @ewanbirney @leonidkruglyak of a 50:50 split over 8 places creating "an interesting" pattern. Probably very high. :) #bog13
332286818001235968 May 8 20:12 @obahcall RT @danjgaffney: #bog13 Can Carlos Bustamante chair all sessions of all future conferences?
332287001065832450 May 8 20:12 @leonidkruglyak Yes, I know, 1 in 35. #bog13
332288208836632577 May 8 20:17 @tuuliel RT @danjgaffney: #bog13 Can Carlos Bustamante chair all sessions of all future conferences?
332288657497137153 May 8 20:19 @joe_pickrell Iron fist in a velvet glove RT @danjgaffney #bog13 Can Carlos Bustamante chair all sessions of all future conferences?
332289181013401600 May 8 20:21 @wrmccombie @girlscientist While I support people tweeting I don't see a problem if someone doesn't want their talk tweeted. Should be choice. #bog13
332289793507590144 May 8 20:23 @probablechemist Might have found a useful application of twitter - lots of peeps tweeting from the #bog13 conference. Great poster session earlier today!
332290213403586560 May 8 20:25 @klmr @wrmccombie @girlscientist Seems somewhat counter the very idea of a conference though. #bog13
332290717890260992 May 8 20:27 @JChrisPires RT @joe_pickrell: Iron fist in a velvet glove RT @danjgaffney #bog13 Can Carlos Bustamante chair all sessions of all future conferences?
332290882927726593 May 8 20:28 @JChrisPires RT @cshlmeetings: Follow #bog13 this week for live updates from the annual Biology of Genomes meeting. http://fb.me/BIfcGxWX
332290888569061376 May 8 20:28 @amythewilliams .@Graham_Coop @razibkhan @notSoJunkDNA curiously found PRDM9 binds promoters where recombination rare; maybe it sometimes blocks? #bog13 2/2
332290895506456576 May 8 20:28 @gknoProject RT @joe_pickrell: Iron fist in a velvet glove RT @danjgaffney #bog13 Can Carlos Bustamante chair all sessions of all future conferences?
332291262650646528 May 8 20:29 @JChrisPires RT @ewanbirney: Height gwas implicates... Skeletal biology, joints and cartilage. Not a surprise but great to see. #bog13
332291485707956224 May 8 20:30 @leonidkruglyak Take-home from last 3 talks: the whole enhancer business is really complex. #bog13
332291581690392578 May 8 20:31 @JChrisPires RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332291612614987776 May 8 20:31 @JChrisPires RT @illumina: Great tweeting from #bog13 cc @ewanbirney @girlscientist @obahcall @dgmacarthur @bullymom2 @evolvability @erlichya and others
332291638896500736 May 8 20:31 @JChrisPires RT @Awesomics: Biology of Genomes #BoG13 - http://meetings.cshl.edu/meetings/2013/genome13.shtml MT @erlichya All tweets in this Google Doc http://bit.ly/15BR1KP auto updated every 1min
332291642969190400 May 8 20:31 @bullymom2 Jesse Engreitz on large noncoding RNAs #bog13
332291709218201603 May 8 20:31 @ewanbirney @leonidkruglyak did we expect anything different? #bog13
332291743288553473 May 8 20:31 @konrad_jk I've been quiet in the past few talks but up next, my buddy Jesse Engreitz on lincRNAs and 3D (yay!) architecture #bog13
332291751685521408 May 8 20:31 @JChrisPires RT @notSoJunkDNA: #BOG13 Mike Snyder describes the next round of #ENCODE. Dan Graur is probably sharpening his pencils (or his sword)
332291854873800705 May 8 20:32 @JChrisPires RT @girlscientist: First tweetable talk: Cosmas Arnold from Vienna, on enhancer seeking technique called STARR-seq. #bog13
332291878831665152 May 8 20:32 @JChrisPires RT @girlscientist: STARR-seq apparently described in Arnold et al. Science 2013 if you want to follow along. #bog13
332291879695695872 May 8 20:32 @bullymom2 JE: lncRNA act at level of chromatin and can regulate gene expression. possible that they play a role in recruitment. #bog13
332291927590436866 May 8 20:32 @JChrisPires RT @ewanbirney: V cool. Now have a high throughput enhancer screen that can work on any library - put in 5 species #bog13
332291985610256385 May 8 20:32 @JChrisPires RT @matthewherper: CA evolutionary difference equivalent to human reptilian, 50% of enhancers conserved. (talkin' fly genetics) #bog13
332292175511572481 May 8 20:33 @wrmccombie @leonidkruglyak I would agree but add that it can start to be figured out. #bog13
332292273121415168 May 8 20:33 @bullymom2 JE: mapped locations where lncRNA bind to DNA. used anti-sense probe for entire sequence of lncRNA #bog13
332292356927795201 May 8 20:34 @matthewherper Jesse Eingretz talking about lincRNAs, gene regulators made from long non-coding DNA. #bog13
332292427765383168 May 8 20:34 @leonidkruglyak "This looks simple on paper, and Eric Lander told me this was a two-month rotation project." #bog13
332292435210301440 May 8 20:34 @girlscientist Jesse Engreitz developing RAP: ChiP-seq like method to map lncRNA localization. Lander told him rotation project. Audience laughs. #bog13
332292544358658048 May 8 20:34 @konrad_jk RT @leonidkruglyak: "This looks simple on paper, and Eric Lander told me this was a two-month rotation project." #bog13
332292676697337857 May 8 20:35 @matthewherper Designing RNA probes for X-inactive specific transcript -- power of doing this thru HPS is we can figure out where x chrom binds. #bog13
332292682946842624 May 8 20:35 @girlscientist Exactly: haven't we known for some time many places that XIST RNA binds to X chromosome? #bog13
332292708603408384 May 8 20:35 @matthewherper RT @leonidkruglyak: "This looks simple on paper, and Eric Lander told me this was a two-month rotation project." #bog13
332292971368181760 May 8 20:36 @konrad_jk JE presenting RNA Antisense Protocol (RAP) a ChIP-Seq like protocol to localize lincRNAs. Find binding sites of Xist to chrX #bog13
332293029387968512 May 8 20:36 @JChrisPires RT @leonidkruglyak: Take-home from last 3 talks: the whole enhancer business is really complex. #bog13
332293044256788480 May 8 20:36 @matthewherper JE: How doe sXist actually locate its regulatory target? #bog13
332293110530994176 May 8 20:37 @girlscientist Regions of lower XIST binding to Xi = regions of escaping genes. #bog13
332293124871303168 May 8 20:37 @ewanbirney Try out with xist first - coats all over all if x but for x inactivation escape genes. #bog13
332293431621718016 May 8 20:38 @konrad_jk JE: Dynamics of Xist localization. Starts at own locus and spreads across. Suggesting that it may be jumping/leaping #bog13
332293483765321729 May 8 20:38 @girlscientist Cool. His data consistent with Xist pursuing a jumping model to find their regulatory targets, rather than spreading linearly. #bog13
332293491491225601 May 8 20:38 @bullymom2 Q: Could Xist be folding the DNA in order to 'jump'? #bog13
332293753081565185 May 8 20:39 @denizkural RT @ewanbirney: Human variation dominated by very low frequency 44% coding variants only seen once in the 25k samples #bog13
332293861932154883 May 8 20:40 @danjgaffney Engrietz - nice time-series of Xist spreading across X chromosome following induction #bog13
332293871637770240 May 8 20:40 @girlscientist Way cool: Bing Ren HiC data show that sites with contact frequency with Xist locus also have early Xist RNA localization. #bog13
332294017230450688 May 8 20:40 @konrad_jk Whoa. JE: Xist localization correlates with Hi-C data. How to prove? Move the Xist gene and see if localization follows! (It does!) #bog13
332294066287017988 May 8 20:40 @larry_parnell Also nice to see JE moving Xist gene 50 MB away to test its new contact points #bog13
332294085450797056 May 8 20:40 @bullymom2 JE: moved Xist gene to see how jumping profile would look. suggests that x chrom has conformation and Xist makes us of it to jump. #bog13
332294088382623745 May 8 20:40 @mgymrek JE: Xist binding very closely matches areas of chromatin contact found with HiC. very cool. #bog13
332294158083559424 May 8 20:41 @jjmerkin #bog13 may be silly q, but if xist spreads by 3d co-localization, how does cell prevent from jumping to other chromosomes with contacts?
332294174726565888 May 8 20:41 @girlscientist Engreitz: Data suggest Xist RNA exploits 3D architecture to spread across the X chromosome. #bog13 Can Xist RNA change conformation itself?
332294379496689664 May 8 20:42 @bullymom2 JE: maybe it is both conformation of chromsome and active binding of Xist. mutated gene and get some genes no longer silenced. #bog13
332294458232172544 May 8 20:42 @larry_parnell Q: Any thoughts on how this approach would apply to somatic-encoded lincRNAs? #bog13
332294617015910400 May 8 20:43 @tuuliel Very cool story of X-inactivation, linc-RNA, and 3D architecture by Jesse Engreitz. #bog13
332294835258130432 May 8 20:43 @girlscientist Engreitz suggests that lncRNAs can establish nuclear compartments containing coregulated targets. #bog13
332295003177115648 May 8 20:44 @caruanascott Way cool! RT @girlscientist: Regions of lower XIST binding to Xi = regions of escaping genes. #bog13
332295006947782656 May 8 20:44 @bullymom2 JE: studied other lncRNAs and see similar kinds of profiles. evidence that some actually bind chromosomes together (trans) #bog13
332295116402327553 May 8 20:45 @konrad_jk Heh. JE with a teaser: "these 4 genes that are involved in metabolism" #bog13
332295233255645184 May 8 20:45 @JChrisPires RT @girlscientist: Engreitz suggests that lncRNAs can establish nuclear compartments containing coregulated targets. #bog13
332295377950736385 May 8 20:46 @JChrisPires RT @girlscientist: Engreitz: Data suggest Xist RNA exploits 3D architecture to spread across the X chromosome. #bog13 Can Xist RNA change conformation itself?
332295413728165889 May 8 20:46 @JChrisPires RT @larry_parnell: Also nice to see JE moving Xist gene 50 MB away to test its new contact points #bog13
332295444971532288 May 8 20:46 @tuuliel I wonder if the RAP method would work for miRNAs too to discover their targets better than computational methods... #bog13
332295739516538880 May 8 20:47 @larry_parnell @konrad_jk Yeah, that teaser sounds like cancer or heart disease, right? #bog13
332295981771137024 May 8 20:48 @mgymrek great talk on his work with lincRNAs by fellow HST BIGster @jengreitz! #bog13
332296023659659264 May 8 20:48 @girlscientist You can probably tell I did my postdoc on this very question in X-inactivation and love this stuff. Well done Jesse Engreitz! #bog13
332296088059006976 May 8 20:48 @ewanbirney @tuuliel is that clip seq? #bog13
332296235853680640 May 8 20:49 @bullymom2 JE: RAP method is not specific to lncRNA. Could be used to find other kinds of RNA interactions with DNA. #bog13
332296706748186624 May 8 20:51 @notSoJunkDNA @joe_pickrell @ewanbirney @tuuliel Bob Darnell will be here tomorrow if you want to discuss CLIP-Seq #bog13
332297408811782144 May 8 20:54 @Ubercoat Cool stuff from Jess Engreitz - Xist appears to achieve X silencing by drawing in regions that are nearby in 3D, not linear, space. #bog13
332298418171023362 May 8 20:58 @DNAdrivenDIVA RT @ewanbirney: Biology is wonderfully... novel. Circular RNAs - I would not have predicted this. Lots of questions triggered by this #bog13
332300952134615041 May 8 21:08 @konrad_jk RT @danjgaffney: #bog13 Can Carlos Bustamante chair all sessions of all future conferences?
332301594676834304 May 8 21:10 @danrdanny I tell students this story about sequencing an ALL genome all the time! They love it. #bog13
332301652516302848 May 8 21:11 @girlscientist Rick Wilson now on ALL. Starts with story of his colleague Lukas Wartman who was saved by genome sequencing. #bog13
332301787098918912 May 8 21:11 @leonidkruglyak Rick Wilson: "high-impact journal, like The NYT..." #bog13
332301923829030913 May 8 21:12 @ewanbirney Rick Wilson talking about an acute lymph. Leukaemia - written up in science pub and New York Times. Patient revealed himself. #bog13
332302123687616513 May 8 21:12 @leonidkruglyak Wilson talking about ALL (speaker order switch ruins tweetable/untweetable alternating series) #bog13
332302436972773376 May 8 21:14 @larry_parnell FLT3 is a class III receptor tyrosine kinase that regulates hematopoiesis (RefSeq) #bog13
332302602563878913 May 8 21:14 @karmel_a RT @leonidkruglyak: Take-home from last 3 talks: the whole enhancer business is really complex. #bog13
332302624252641281 May 8 21:14 @jmichaethompson RT @leonidkruglyak: "This looks simple on paper, and Eric Lander told me this was a two-month rotation project." #bog13
332302635812126722 May 8 21:14 @JChrisPires RT @leonidkruglyak: Rick Wilson: "high-impact journal, like The NYT..." #bog13
332302771300741120 May 8 21:15 @matthewherper Rick Wilson recounting this story: http://www.nytimes.com/2012/07/08/health/in-gene-sequencing-treatment-for-leukemia-glimpses-of-the-future.html?pagewanted=all Q: Why was FLT-3 over expression? Trying to figure it out. #bog13
332303010371870720 May 8 21:16 @matthewherper RW: What jumped out? six single nucleotide variants -- but nothing we glommed onto as druggable #bog13
332303130370924545 May 8 21:16 @girlscientist Whole genome seq indicated their ALL patient had two tumor subclones, differing by CNVs which could be seen by FISH. #bog13
332303201128837121 May 8 21:17 @girlscientist BINGO! Thanks Rick Wilson!! #bog13
332303238999203842 May 8 21:17 @matthewherper RW: certain deletions were useful in monitoring tumor cells, to be even more sure than pathologist Lucas was in remission. #bog13
332303329948479489 May 8 21:17 @luke__ward R. Wilson http://www.nytimes.com/2012/07/08/health/in-gene-sequencing-treatment-for-leukemia-glimpses-of-the-future.html?pagewanted=all … oncologist Lukas Wartman got RNA-seq on his leukemia; found FLT3 overexpr, druggable by sunitinib #bog13
332303379697115138 May 8 21:17 @girlscientist Yay my request to Rick at dinner to mention the CLIA lab paid off…. http://esquilax.stanford.edu/media/graphics/bingo/Chris_vRAbiZ.png #bog13
332303576292540419 May 8 21:18 @matthewherper RW: what is driving FLT3 over-expression? They don't know. Two indels. Mutations in trascription activating factor EP300. #bog13
332303652637265920 May 8 21:18 @matthewherper RW: We wonder if these might be involved in some sort of upregulation of FLT-3 #bog13
332303842219810817 May 8 21:19 @matthewherper RW: Lots of work, basically, to figure out why FLT3 was over expressed and (me talking) why Sutent worked. #bog13
332303848825843712 May 8 21:19 @girlscientist Wilson: why is FLT3 so over expressed in ALL? Large (surprisingly, to me) number of variants between subclones. #bog13
332304214267138049 May 8 21:21 @matthewherper RT @girlscientist: Wilson: why is FLT3 so over expressed in ALL? Large (surprisingly, to me) number of variants between subclones. #bog13
332304294957182977 May 8 21:21 @leonidkruglyak RW: lots of somatic alterations in tumor genome. What drives FLT3 overexpression? Possibly two intronic indels? Expts in progress. #bog13
332304318172635137 May 8 21:21 @jjmerkin #bog13 2 indels in same intron and no mention of altered splicing? can affect expression.
332304491464507392 May 8 21:22 @girlscientist Wilson: no satisfying answer yet; saw two indels in FLT3 shoot way up in frequency only in 2nd relapse. Don't yet know if important. #bog13
332305279192543234 May 8 21:25 @leonidkruglyak Cis changes in FLT3? Trans factors, including gene fusions? Multiple driver alterations? #bog13
332305569065078784 May 8 21:26 @girlscientist Wilson: but wait, maybe the FLT3 overexpression is actually coming from other proteins activating it and none of its own mutations…. #bog13
332305595434672128 May 8 21:26 @wrmccombie Rick's talk. It will be very interesting to see what the earliest sample. that they haven't analysed yet, looks like. #bog13
332305639680380928 May 8 21:26 @konrad_jk @girlscientist Me too! BINGO! http://esquilax.stanford.edu/media/graphics/bingo/konrad_jk_N8fbRV.png #interpretome #bog13
332305658730909696 May 8 21:26 @luke__ward RW: WGS found lots of stuff in his ALL. No CNV at FLT3, but indels in first intron. EP300-ZNF384 fusion found but only post remission #bog13
332305711499444226 May 8 21:27 @eperlste RT @girlscientist: Engreitz suggests that lncRNAs can establish nuclear compartments containing coregulated targets. #bog13
332306344432517120 May 8 21:29 @larry_parnell RW: A few cases of ZNF384 fusions are known in ALL but in only 1 case was FLT3 expression examined #bog13
332306457603215362 May 8 21:30 @leonidkruglyak Low battery warning. #bog13
332307019598028800 May 8 21:32 @girlscientist Now up Ingegerd Elvers from Kerstin Lindblad-Toh's lab, talking about canine cancer. But we can't tweet. Poor broken-hearted bird. #bog13
332307250167296004 May 8 21:33 @leonidkruglyak #bog13 dead bird icon: http://t.co/WXTMRzdC4J
332307574445731841 May 8 21:34 @Lewis_Lab "live-Tweet this and I'll kill you" ? RT @leonidkruglyak #bog13 dead bird icon: http://t.co/2yW0DDuDgk
332307588291100673 May 8 21:34 @danrdanny I'm an aspiring oncologist, and Rick's talk about FLT3 is exactly how I expect to treat every patient in 20 years. #bog13
332307664942022657 May 8 21:34 @Point_Mutation RT @girlscientist: Engreitz suggests that lncRNAs can establish nuclear compartments containing coregulated targets. #bog13
332307719509921794 May 8 21:35 @is_chris Distracted watching the Biology of the Genomes meeting tweets. All #bog13 tweets here: http://bit.ly/15BR1KP (thanks @erlichya)
332307784446115841 May 8 21:35 @scienceupulie RT @is_chris: Distracted watching the Biology of the Genomes meeting tweets. All #bog13 tweets here: http://bit.ly/15BR1KP (thanks @erlichya)
332307784446128128 May 8 21:35 @upulie RT @is_chris: Distracted watching the Biology of the Genomes meeting tweets. All #bog13 tweets here: http://bit.ly/15BR1KP (thanks @erlichya)
332308033893961728 May 8 21:36 @is_chris Speakers at #bog13 appear to have been asked to specify whether their talks may or may not be live-tweeted. #openscience
332308548212125696 May 8 21:38 @girlscientist Subtle, no? This is what's on screen when speaker says no tweeting. RT @leonidkruglyak: #bog13 dead bird icon: http://t.co/gQPI2i3jm4
332308866622713856 May 8 21:39 @danrdanny In other news, the wifi is working great this session…I know those of you at home were wondering. #bog13
332309027482632192 May 8 21:40 @BlueSEQ MT We're also archiving here: http://ngs.is/10qSBYj @erlichya: Google Doc of tweets from #BoG13. http://bit.ly/15BR1KP
332309273033977856 May 8 21:41 @josarc RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332309401518100480 May 8 21:41 @stephaniehicks I have no hope of being productive for the next few days. Seriously. Between Hooding Friday, Graduation Saturday and #bog13 all week. #oye
332309629604356096 May 8 21:42 @PosterDavid @PosterDavid restating my obvious point also made by MD at #bog13:"de novo mutat. are easier to detect in noise of 100 inherited LOF/genome
332310933705728001 May 8 21:47 @ewanbirney Aha. Sophia k. Is the right way to abbreviate the next speaker :) #bog13
332311089247313920 May 8 21:48 @obahcall Sophia K. on genome diversity within a human medulloblastoma, highly malignant pediatric brain tumor #bog13
332311120822026240 May 8 21:48 @obahcall RT @BlueSEQ: MT We're also archiving here: http://ngs.is/10qSBYj @erlichya: Google Doc of tweets from #BoG13. http://bit.ly/15BR1KP
332311198404050945 May 8 21:48 @obahcall RT @leonidkruglyak: #bog13 dead bird icon: http://t.co/WXTMRzdC4J
332312253070180352 May 8 21:53 @wrmccombie Maybe during talks that can't be tweeted I can learn how to use twitter properly. don't think I'm there yet. #bog13
332312707229421569 May 8 21:54 @larry_parnell @wrmccombie Good idea - look up a publ report from no-tweeting speaker to inform us all not @ CSHL tonight #bog13
332312730595893248 May 8 21:55 @girlscientist Sofia K[very long last name] on sequencing medulloblastoma exome & genome from pediatric patient. Lots of copy number changes. #bog13
332312949190438912 May 8 21:55 @obahcall SK: Single cell sequencing isolated cells from medulloblastoma from 9 yr old girl, whole exome and genome seq, primary+recurrence #bog13
332313562880024576 May 8 21:58 @robin_andersson RT @girlscientist: Subtle, no? This is what's on screen when speaker says no tweeting. RT @leonidkruglyak: #bog13 dead bird icon: http://t.co/gQPI2i3jm4
332313614679674881 May 8 21:58 @ctitusbrown RT @leonidkruglyak: Take-home from last 3 talks: the whole enhancer business is really complex. #bog13
332314890264002561 May 8 22:03 @denizkural #bog13 Sophia K. Tells us that relapse-primary overlap wouldn't be possible w/o single cell (N=~30) sequencing. Allows phylogeny constr.
332315172171571200 May 8 22:04 @obahcall SK: single cell sequencing allowed for identification of cells survived and proliferated in recurrent tumor #bog13
332315240119279617 May 8 22:05 @girlscientist You can tell from sparser tweets that the room is flagging a little. Time for Barbara Wold to re-energize us for the bar. #bog13
332315674926018560 May 8 22:06 @girlscientist It's starting off well to energize the room: "Pursuing 'FUNCTION'" via ENCODE. #bog13
332315794035838976 May 8 22:07 @larry_parnell BW: Function and the pursuit of it #bog13
332315900868980736 May 8 22:07 @KatherineMejia Classic! @leonidkruglyak: "This looks simple on paper, and Eric Lander told me this was a two-month rotation project." #bog13
332316998447005696 May 8 22:12 @thorsonofodin RT @EncodeDCC: Standing room only at the #ENCODE workshop at #bog13 http://t.co/RAEimRrAHF
332317568511643649 May 8 22:14 @CrowdedHead RT @obahcall: SK: single cell sequencing allowed for identification of cells survived and proliferated in recurrent tumor #bog13
332320454142476288 May 8 22:25 @obahcall @BertGold4 Sofia Kyriazopoulou-Panagiotopoulou from Stanford, Serafim Batzoglou lab #bog13
332320457195917315 May 8 22:25 @genomeresearch RT @girlscientist: It's starting off well to energize the room: "Pursuing 'FUNCTION'" via ENCODE. #bog13
332320872587227137 May 8 22:27 @nparmalee Thanks to the #bog13 tweeters. Great coverage.
332320983786606593 May 8 22:27 @rtraborn I'm listening. // RT @girlscientist: It's starting off well to energize the room: "Pursuing 'FUNCTION'" via ENCODE. #bog13
332321465401753601 May 8 22:29 @dgmacarthur RT @leonidkruglyak: Why hasn't CSHL wifi been upgraded, @cshlmeetings? #bog13
332323649602330624 May 8 22:38 @Jeggog RT @genomeresearch: RT @girlscientist: It's starting off well to energize the room: "Pursuing 'FUNCTION'" via ENCODE. #bog13
332324273509257221 May 8 22:40 @erlichya Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332324845515853826 May 8 22:43 @benoitbruneau @erlichya Well everyone just LOOOVES enhancers don't they. Well yes. And they should. #bog13
332325613119614977 May 8 22:46 @bjesseshapiro followed sound advice from @bffo to follow @stefaniebutland. Greetings from #bog13
332326474378002433 May 8 22:49 @wrmccombie One thing missing from watching the stream is the bar. :( #bog13
332326507068403712 May 8 22:49 @robin_andersson RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332326822681387008 May 8 22:51 @AP_Boyle RT @wrmccombie: One thing missing from watching the stream is the bar. :( #bog13
332329252571729920 May 8 23:00 @Ubercoat Had a thought during Ingrid Elvers' talk - someone should sequence dog show winners to assemble "breed standard" genomes #bog13
332329538640031744 May 8 23:01 @Colin_at_cu RT @genomeresearch: RT @girlscientist: It's starting off well to energize the room: "Pursuing 'FUNCTION'" via ENCODE. #bog13
332329990190407681 May 8 23:03 @AMathelier RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332330302229848064 May 8 23:04 @tjkwon75 RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332335581805805568 May 8 23:25 @infoecho RT @bioinfosm: LOL! MT @notSoJunkDNA #BOG13 Mike Snyder describes the next round of #ENCODE. @DanGraur is probably sharpening his pencils (or his sword)
332336980698468352 May 8 23:31 @roy_ronen RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332339771110211584 May 8 23:42 @bryan_howie RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332340803873685504 May 8 23:46 @gawbul RT @ngsgene: #bog13 Interesting talks, wifi, air conditioning & dead bird issues Neat tweets @bioinfosm @bullymom2 @obahcall @dgmacarthur #bioinformatics
332356541086830592 May 9 00:49 @casey6r0wn RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332372047726514177 May 9 01:50 @alon_goren RT @mgymrek: great talk on his work with lincRNAs by fellow HST BIGster @jengreitz! #bog13
332372480704524288 May 9 01:52 @mwilsonsayres RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332373899159420928 May 9 01:58 @dwheelerau #Dumb #dumb #dumb RT @is_chris: Speakers at #bog13 appear to have been asked to specify wh.r their talks may/may not be live-tweeted.
332375192888279040 May 9 02:03 @SpunkyScientist RT @leonidkruglyak: Take-home from last 3 talks: the whole enhancer business is really complex. #bog13
332379589529714688 May 9 02:20 @Awesomics RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332382546354634752 May 9 02:32 @bffo RT @bjesseshapiro: followed sound advice from @bffo to follow @stefaniebutland. Greetings from #bog13
332397548071424000 May 9 03:32 @CMDooley77 RT @matthewherper: Jesse Eingretz talking about lincRNAs, gene regulators made from long non-coding DNA. #bog13
332412985928720384 May 9 04:33 @EduEyras RT @bioinfosm: LOL! MT @notSoJunkDNA #BOG13 Mike Snyder describes the next round of #ENCODE. @DanGraur is probably sharpening his pencils (or his sword)
332417403499716608 May 9 04:50 @EduEyras RT @Ubercoat: @bullymom2 I believe the cutoff for stretch enhancers is anything > 3 kb #bog13
332419725516746752 May 9 05:00 @cusanovich @erlichya - You sure that *Enhancers* is the winner? The wordle makes it look like *tweets* is the most popular term. #bog13 #aahinternet
332424491437285376 May 9 05:19 @BioMath We did the 454 sequencing for this. "@pop_gen_JED: Speaking of dead #bog13 ... Scarlet Macaw genome published. http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0062415"
332435192025346048 May 9 06:01 @SeqComplete buzz- The Biology of Genomes #bog13 is out! http://paper.li/SeqComplete/1363021264 ▸ Top stories today via @luke__ward @jameslz @matthewherper
332450350567141378 May 9 07:01 @drbachinsky RT @girlscientist: Engreitz suggests that lncRNAs can establish nuclear compartments containing coregulated targets. #bog13
332450871566794753 May 9 07:03 @bullymom2 RT @girlscientist: Yay my request to Rick at dinner to mention the CLIA lab paid off…. http://esquilax.stanford.edu/media/graphics/bingo/Chris_vRAbiZ.png #bog13
332452798241316866 May 9 07:11 @bullymom2 #bog13 weather report http://www.accuweather.com/en/us/cold-spring-harbor-ny/11724/hourly-weather-forecast/2102063
332466231158386688 May 9 08:05 @Awesomics Transcriptional enhancers in development & disease (review, #OA) http://genomebiology.com/content/13/1/238 Also: Young lab pubs: http://younglab.wi.mit.edu/publications.htm #bog13
332466752153845762 May 9 08:07 @ensembl #bog13 #Ensembl poster today (Thurs) after 2pm: #144 Comparative Genomics (J. Herrero)
332468389748539392 May 9 08:13 @aaronquinlan Check out Ryan Layer's poster no. 185 on LUMPY, our probabilistic SV discovery tool. #bog13 http://quinlanlab.org/software.html
332477008623853568 May 9 08:47 @scientre #bog13 @ Cold Spring Harbor Labs MT @matthewherper true fact: the talks here have icons to tell you whether or not you can tweet them.
332477964522504192 May 9 08:51 @Ubercoat Interested in retroviral integration? Check out my poster (no. 180) today for the latest on why MLV integrates where it does #bog13
332478063503867904 May 9 08:52 @probablechemist At the #bog13 conference in Cold Spring Harbor. Went for a short run this morning, saw a racoon! http://app.strava.com/activities/53234662?ref=1MT1yaWRlX3NoYXJlOzI9dHdpdHRlcjs0PTEwOTM2ODQ%253D #strava
332478510599909376 May 9 08:53 @NatureRevGenet Good morning #bog13! Interested in some editorial experience? We are hiring a Locum Associate Editor http://bit.ly/13PfmYP
332479028504170496 May 9 08:55 @fiamh RT @aaronquinlan: Check out Ryan Layer's poster no. 185 on LUMPY, our probabilistic SV discovery tool. #bog13 http://quinlanlab.org/software.html
332479232095711233 May 9 08:56 @erlichya Balckford Bar serves excellent cappuccino, in case you need one.. #bog13 http://t.co/GqZUJEcfrL
332480169531023360 May 9 09:00 @ewanbirney RT @ensembl: #bog13 #Ensembl poster today (Thurs) after 2pm: #144 Comparative Genomics (J. Herrero)
332480479389429762 May 9 09:01 @girlscientist Jan Korbel kicking off #bog13 today with chromosomal rearrangements in cancer. 2013 Cell paper Korbel & Campbell for more info.
332480524297834496 May 9 09:01 @notSoJunkDNA #Bog13 First session of the day on Computational Genomics. First speaker is Jan Korbel (EMBL) on structural rearrangements in cancer.
332480923893395457 May 9 09:03 @notSoJunkDNA JK: a Medulloblastoma genome with catastrophic rearrangement of chromosome 15 #Bog13
332481214999064577 May 9 09:04 @ewanbirney Jan Korbel from embl hd talking about cancer catastrophes - chromothripis. In medullablastomeres link to germ line p53 mutations #bog13
332481380053291008 May 9 09:05 @obahcall RT @NatureRevGenet: Good morning #bog13! Interested in some editorial experience? We are hiring a Locum Associate Editor http://t.co/J4fpflghth
332481406892666880 May 9 09:05 @girlscientist Korbel reviewing chromothripsis – "hypothetical process where chromosomes shatter.” Seen often w/formation of circular DNAs. #bog13
332481478862721024 May 9 09:05 @JavierHerrero7 JK talking about chromothripsis. Refreshing to hear about a buzz work that doesn't end in -ome. #bog13
332481765371441152 May 9 09:06 @Magda_Skipper Korbel: chromoothripsis often associated with circular chromosomes #bog13
332481858690494465 May 9 09:07 @notSoJunkDNA JK: discuss briefly the 7 criteria for chromothripsis. Korbel and Campbell, Cell 2013 #Bog13
332482081726820352 May 9 09:08 @mgymrek day 3 of fun running at #bog13 http://app.strava.com/activities/53239136
332482108650053632 May 9 09:08 @GenomeBiology Korbel :7 key criteria define chromothripsis #bog13
332482208214437888 May 9 09:08 @Magda_Skipper Korbel: send us our rearranged cancer genomes for assessment #bog13
332482231333441536 May 9 09:08 @markgerstein korbel: simulations show that chromothripsis can't happen in a stepwise fashion; Developing 7 criteria to characterize this. #bog13
332482362992627712 May 9 09:09 @bullymom2 informed #CSHL that #bog13 talk transmission is poor. hopefully will be fixed soon.
332482492131065856 May 9 09:09 @notSoJunkDNA JK: part 2 on Prostate Cancer, age-impact on the SV landscape #Bog13
332482515925340160 May 9 09:09 @casey6r0wn Dear guy watching a cat movie on your iPad in grace auditorium. Thank you. Plenty of bandwidth to go around. #bog13
332482540470403072 May 9 09:09 @evolvability RT @GenomeBiology: Korbel :7 key criteria define chromothripsis #bog13
332482619679834112 May 9 09:10 @girlscientist Korbel on their part of ICGC, prostate cancer. Found early onset linked with androgen-driven somatic structural variants. #bog13
332482650768044032 May 9 09:10 @GenomeNathan Will the circle be unbroken? Korbel posits post-chromothriptic circular DNA. Human nucleic acid rings seem a recurring new theme at #bog13
332482736436690944 May 9 09:10 @ewanbirney Prostate cancer genomes - focusing on early vs late - young prostate cancer showing more fusions and translocations #bog13
332482743134998530 May 9 09:10 @Magda_Skipper Korbel: different patterns and freq of SVs in early and late onset prostate cancer; #bog13
332482747891322880 May 9 09:10 @GenomeNathan RT @notSoJunkDNA: JK: discuss briefly the 7 criteria for chromothripsis. Korbel and Campbell, Cell 2013 #Bog13
332482764660162561 May 9 09:10 @notSoJunkDNA JK: more SV in elderly vs found patients, but more gene fusions in young #Bog13
332482773329793024 May 9 09:10 @deannachurch #ICCG2013 MH: Also doing gene level curation(DDG2P)- 1,042 genes with ~1500 disease correlations (I think-getting distracted by #bog13 feed)
332482809967026176 May 9 09:10 @bullymom2 naughty! RT @casey6r0wn: Dear guy watching a cat movie on your iPad in grace auditorium. Thank you. Plenty of bandwidth to go around. #bog13
332482918800826368 May 9 09:11 @evolvability RT @notSoJunkDNA: JK: more SV in elderly vs found patients, but more gene fusions in young #Bog13
332483082038943746 May 9 09:11 @notSoJunkDNA RT @casey6r0wn: Dear guy watching a cat movie on your iPad in grace auditorium. Thank you. Plenty of bandwidth to go around. #bog13
332483187144015873 May 9 09:12 @Magda_Skipper Korbel: androgen-driven Rearrangements in your patients Cancer Cell 2013 #bog13
332483189106937856 May 9 09:12 @kayellbe Curious to know what Korbel's proposed circular DNAs in medulloblastoma might look like #bog13 http://www.biophysics.org/Portals/1/PDFs/Education/Vologodskii.pdf
332483249228103680 May 9 09:12 @GenomeNathan @erlichya Was going to ask on this (having suspected that enhancers had indeed emerged as the big recurring topic!). #bog13
332483294799204353 May 9 09:12 @girlscientist Korbel: used tissue microarrays to verify androgen-driven genetic rearrangements. Weischenfeldt et al., Cancer Cell 2013. #bog13
332483371185868800 May 9 09:13 @matthewherper Jan Korbel: Chromothripsis, a catastrophic rearrangement of DNA, may be a key step in medulloblastoma, a brain cancer. #bog13
332483535439011841 May 9 09:13 @matthewherper Korbel looking at two different mechanisms for prostate cancer depending on androgen receptor status. #bog13
332483655123468288 May 9 09:14 @matthewherper To me this is reminiscent of the breast cancer story -- the other hormone-driven cancer. #bog13
332483704125530112 May 9 09:14 @Oli_viajera RT @Magda_Skipper: Korbel: chromoothripsis often associated with circular chromosomes #bog13
332483748643872768 May 9 09:14 @ewanbirney @deannachurch :) I'm getting distracted by #ICCG2013 - say hi to Matt. I notice Daniel has physically bounced. #bog13
332484042647810049 May 9 09:15 @matthewherper Salzberg asks how he knows medulloblastoma DNA is circular -- It's a hypothesis, fits the data. #bog13
332484051409719296 May 9 09:15 @girlscientist Thanks to almost all speakers in this session for allowing tweets! Lone holdout at moment is @anshul. #bog13
332484189062569984 May 9 09:16 @matthewherper Korbel: "The CNVs are explained by the segments being joined together." #bog13
332484396303126528 May 9 09:17 @bullymom2 #bog13 transmission getting worse. :(
332484426854445059 May 9 09:17 @matthewherper could a failure of chromosomes to separate properly lead to the partitioning of those chromosomes into a micronucleus? #bog13
332484497176145920 May 9 09:17 @klmr Layering these flickering effects onto the transmitted TV image in real time must be really computationally intensive. #bog13 #bar
332484528033644544 May 9 09:17 @GenomeNathan Q to Korbel: How to know these DNAs are circular? A: [don't know, but...] presume that only rings could be so stable. #bog13
332484856300834816 May 9 09:19 @JavierHerrero7 I managed to convinced one of the speakers this morning with "surely you want a star next to your name" :-) @girlscientist #bog13
332485058642456576 May 9 09:19 @jcbarret Anybody know if chromothripsis was first described in cancer, or germline by Jim Lupski et al? #bog13
332485205464072193 May 9 09:20 @robin_andersson RT @casey6r0wn: Dear guy watching a cat movie on your iPad in grace auditorium. Thank you. Plenty of bandwidth to go around. #bog13
332485259113402368 May 9 09:20 @notSoJunkDNA RT @jcbarret: Anybody know if chromothripsis was first described in cancer, or germline by Jim Lupski et al? #bog13
332485311806447616 May 9 09:20 @ewanbirney The question I'd like ask :) are there known germ line risks for prostate cancers and do they shed light on prostate cancer models #bog13
332485340315131906 May 9 09:20 @SBGenomics Word of the morning at #BOG13 from Jan Korbel: #chromothripsis - the shattering of chromosomes. For full explanation: http://www.ncbi.nlm.nih.gov/pubmed/23498933
332485509320425473 May 9 09:21 @notSoJunkDNA 2nd speaker this morning is David Jaffe from Broad. "Highly accurate determination of variants" #Bog13
332485515167277057 May 9 09:21 @matthewherper K: Are there more translocations in young cancer patients, less in older? Perhaps a less directed, more random process later in life. #bog13
332485581860913153 May 9 09:21 @bullymom2 David Jaffe on highly accurate variant calling #bog13
332485707069284352 May 9 09:22 @matthewherper I love that at scientist conferences people talk about 9 am being "early in the morning" and "rough." #bog13 #notwallstreet #notpharma
332485753458290688 May 9 09:22 @notSoJunkDNA DJ: "last year we could do well, this year we can do better".#bog13
332486029137281025 May 9 09:23 @ewanbirney David Jaffe on a simple but important question. Can we find all the variants in a genome? #bog13
332486094862032898 May 9 09:23 @notSoJunkDNA DJ: Discovar: correct error in the reads, form a graph and infer variants from graph. Works regions by regions for the human genome. #bog13
332486097781276672 May 9 09:23 @bullymom2 DJ: DISCOVAR corrects errors, makes and simplifies graphs and infers variants. just released. #bog13
332486172238548992 May 9 09:24 @GenomeNathan Jaffe: In a given person's genome, how do we 'find the most variants'? [Shouldn't q be 'most accurately read each chromosome'?] #bog13
332486211052658688 May 9 09:24 @Magda_Skipper Jaffe: we need disco data for DISCOvar #bog13
332486288596930561 May 9 09:24 @Chemjobber RT @matthewherper: I love that at scientist conferences people talk about 9 am being "early in the morning" and "rough." #bog13 #notwallstreet #notpharma
332486293764317184 May 9 09:24 @ewanbirney @matthewherper depends on your source timezone. Pity the Australians. #bog13
332486317831225344 May 9 09:24 @girlscientist David Jaffe on new assembler for human genome to look for variants, DISCOVAR. Just released and not whole genome yet, just regions. #bog13
332486327662690304 May 9 09:24 @deannachurch @GenomeNathan and what about genotypes (and haplotypes)? #bog13
332486422663659520 May 9 09:25 @GenomeBiology @GenomeBiology #bog13
332486470583586818 May 9 09:25 @taragenyx RT @matthewherper: I love that at scientist conferences people talk about 9 am being "early in the morning" and "rough." #bog13 #notwallstreet #notpharma
332486733243490307 May 9 09:26 @dgmacarthur Physically watching #bog13 while following @deannachurch and others on the #ICCG2013 hashtag.
332486738624790528 May 9 09:26 @ewanbirney Use fosmid clones as truth. Need to work out that the truth is true. #bog13
332486968975970305 May 9 09:27 @bullymom2 DJ: DISCOVAR correctly assembles chr. 17 region #bog13. doesn't chr. 17 have a large rearrangement? would this matter?
332487121845768193 May 9 09:28 @matthewherper Jaffe: showing a way of finding variants with DISCOVAR. Makes John Travolta joke. #bog13
332487258257121280 May 9 09:28 @Magda_Skipper Jaffe: GATK on 100 base reads misses several variants #bog13
332487280486924289 May 9 09:28 @kayellbe "Truth data" constructed by Jaffe's group w/NA12878. Why not simulated reads to establish a real upper limit on DISCOVAR's accuracy? #bog13
332487784168321025 May 9 09:30 @bullymom2 DJ: GATK misses ~6x more indels than DISCOVAR . #bog13
332487853248503810 May 9 09:30 @deannachurch #bog13 @bullymom2 is this MAPT? locus has a large, well defined inversion. Both H1 and H2 haplotypes in GRCh37: http://www.ncbi.nlm.nih.gov/projects/genome/assembly/grc/region.cgi?name=MAPT&asm=GRCh37.p12
332488207050620929 May 9 09:32 @Magda_Skipper Jaffe: If reads cover entire genome assembly-based methods do better than alignment ones; DISCOVAR for better #bog13
332488226235371520 May 9 09:32 @markgerstein Jaffe: nice comparisons against ~4mb of fosmid "truth" data on na12878 show improvement of assembly methods over alignment based ones #bog13
332488254886645761 May 9 09:32 @GenomeNathan Jaffe uses DISCOVAR to tackle short read-seq'd HLA(!) Shows coverage contour (looks like very scary EKG). #bog13
332488337862565888 May 9 09:32 @notSoJunkDNA DJ: discover can call in highly variant regions. Example from 20kb HLA region. Phased calling. #bog13
332488338110021634 May 9 09:32 @deannachurch RT @GenomeNathan: Jaffe uses DISCOVAR to tackle short read-seq'd HLA(!) Shows coverage contour (looks like very scary EKG). #bog13
332488475129565186 May 9 09:33 @bullymom2 DJ: DISCOVAR not always able to resolve length of repeats #bog13
332489053385654273 May 9 09:35 @amythewilliams Jaffe: assembly-based variant calling finds 5-10x more variants than classical assemble+varint calling. Q: what read length needed? #bog13
332489057219276800 May 9 09:35 @GenomeNathan Jaffe: DISCOVAR helps perfectly haplotype their HLA sample. [Pending haplotype rarity, that rocks. Did he specify library params?] #bog13
332489203583688705 May 9 09:36 @girlscientist Jaffe making argument that DISCOVAR is better at assembling duplicated regions as it can accommodate multiple paths. #bog13
332489350115897344 May 9 09:36 @matthewherper RT @notSoJunkDNA: DJ: discover can call in highly variant regions. Example from 20kb HLA region. Phased calling. #bog13
332489403014475776 May 9 09:37 @bullymom2 @amythewilliams DJ showed results for 100 and 250KB, I think. #bog13
332489413739286528 May 9 09:37 @matthewherper RT @GenomeNathan: Jaffe uses DISCOVAR to tackle short read-seq'd HLA(!) Shows coverage contour (looks like very scary EKG). #bog13
332489598636802048 May 9 09:37 @bullymom2 JD: DISCOVAR can call duplicated regions and highly variant regions #bog13
332489675384160257 May 9 09:38 @WillisCD neuroblastoma+chromothripsis #Nature http://www.ncbi.nlm.nih.gov/pubmed?cmd=Retrieve&dopt=AbstractPlus&list_uids=22367537 RT @matthewherper JK: Chromothripsis may be a key step in medulloblastoma #bog13
332489766903873536 May 9 09:38 @evolvability RT @casey6r0wn: Dear guy watching a cat movie on your iPad in grace auditorium. Thank you. Plenty of bandwidth to go around. #bog13
332489821060734977 May 9 09:38 @girlscientist Jaffe: the "truth" dataset used to test DISCOVAR is publicly available by ftp. I guess contact him if you want it? #bog13
332489911766749184 May 9 09:39 @wrmccombie @amythewilliams 250 base I think. #bog13
332489964552089600 May 9 09:39 @notSoJunkDNA Discovar looks like a very interesting tool. http://www.broadinstitute.org/software/discovar/blog/?p=176 Too bad it's under a restrictive license from #Broad #bog13
332490067094429696 May 9 09:39 @girlscientist .@ewanbirney: we should all move to graph-based views of reference sequences [presumably to see variants]. #bog13
332490085742309376 May 9 09:39 @bullymom2 #bog13. Sorry, was off by a factor of K. showed results for 100 and 250 bases.
332490284149657600 May 9 09:40 @wrmccombie Great talk by Jaffe. People have known this was an issue since Next Gen started. He is solving it. #bog13
332490406250041345 May 9 09:41 @dgmacarthur Excited about David Jaffe’s assembly methods - we’re currently applying them to PCR-free 2x250 WGS data from 3 Mendelian families. #bog13
332490632033615873 May 9 09:41 @notSoJunkDNA Erik Garrison: Simultaneous assembly of thousands of human genomes #bog13
332490637926600704 May 9 09:42 @Ubercoat Neat talk by David Jaffe on using assembly to find variants. @ewanbirney lauds push toward graph-centric thinking during questions. #bog13
332490654104051712 May 9 09:42 @ewanbirney @girlscientist for everything in my view - not just variants. Annotation as well, chip-seq processing, RNA ... #bog13
332490709804392450 May 9 09:42 @Magda_Skipper Garrison may be a rising star on the genomics scenes says Korbel. No pressure... #bog13
332490796832022528 May 9 09:42 @bullymom2 Erik Garrison on 1000 genomes simultaneous assembly with 4x coverage #bog13
332490835562201089 May 9 09:42 @matthewherper Erik Garrison talking about assembling genomes with low coverage, lots of genomes. (1,000 genomes project) #bog13
332490904185212928 May 9 09:43 @matthewherper RT @girlscientist: .@ewanbirney: we should all move to graph-based views of reference sequences [presumably to see variants]. #bog13
332490918924005378 May 9 09:43 @matthewherper RT @ewanbirney: @girlscientist for everything in my view - not just variants. Annotation as well, chip-seq processing, RNA ... #bog13
332490952293875714 May 9 09:43 @girlscientist Erik Garrison on behalf of 1000 Genomes Project. #bog13 Project now over 70K gigabases of sequence data.
332491223380131840 May 9 09:44 @ggsimpsonrna RT @girlscientist: .@ewanbirney: we should all move to graph-based views of reference sequences [presumably to see variants]. #bog13
332491246448820224 May 9 09:44 @matthewherper RT @Magda_Skipper: Garrison may be a rising star on the genomics scenes says Korbel. No pressure... #bog13
332491315298312193 May 9 09:44 @AndreaCiolfi RT @notSoJunkDNA: DJ: discover can call in highly variant regions. Example from 20kb HLA region. Phased calling. #bog13
332491403034775552 May 9 09:45 @bullymom2 EG: assembly methods not always possible b/c of low depth (I think) #bog13
332491654655250432 May 9 09:46 @dgmacarthur Erik Garrison is discussing the transition of the 1000 Genomes Project to discovery of more complex variants. #bog13
332491785706274816 May 9 09:46 @bullymom2 EG: Can anyone tell me what SV stands for? #bog13
332491883110596609 May 9 09:46 @AndreaCiolfi RT @dgmacarthur: Erik Garrison is discussing the transition of the 1000 Genomes Project to discovery of more complex variants. #bog13
332491974298976258 May 9 09:47 @bullymom2 that was my Q, not Erik's. #bog13
332492025129738240 May 9 09:47 @ewanbirney Erik garrison on 1000 genomes. Great to see SVs being integrated into phasing methods. #bog13
332492224577290241 May 9 09:48 @genomeresearch RT @girlscientist: .@ewanbirney: we should all move to graph-based views of reference sequences [presumably to see variants]. #bog13
332492263403970560 May 9 09:48 @michaelhoffman @deannachurch @girlscientist Is it just me or does KC951366 have a lot of poly(T)? #bog13
332492323999080453 May 9 09:48 @Magda_Skipper Garrick: multiple approaches to integrate frequency nod classes of variants #bog13
332492537308790784 May 9 09:49 @e__mendenhall this is my favorite #bog13 tweet. RT @GenomeBiology: @GenomeBiology #bog13
332492583290953730 May 9 09:49 @GenomeNathan Garrison: any variant -- regardless what kind or how rare -- can matter. Cites STR eQTLS (as called by @erlichya LobSTR), etc. #bog13
332492636277583874 May 9 09:49 @EduEyras RT @girlscientist: Engreitz suggests that lncRNAs can establish nuclear compartments containing coregulated targets. #bog13
332492839755857920 May 9 09:50 @EvaAlloza RT @girlscientist: Engreitz suggests that lncRNAs can establish nuclear compartments containing coregulated targets. #bog13
332493256317358080 May 9 09:52 @lauribe RT@girlscientist: Erik Garrison on behalf of 1000 Genomes Project. #bog13 Project now over 70K gigabases of sequence data.
332493345966399488 May 9 09:52 @markgerstein Garrison: nice discussion of how ensemble approaches work well for calling a wide range of variants + good overview of 1000G efforts #bog13
332493674460090368 May 9 09:54 @kayellbe Erik Garrison and @denizkural integrating more classes of variation in the genome via a variant graph. #bog13
332493795016982528 May 9 09:54 @ewanbirney Erik garrison also moves to a graph based resolver, and presents other graph methods from the variants #bog13
332494221003063297 May 9 09:56 @bullymom2 EG showing multi-color graph of HLA. wow. #bog13
332494319086866432 May 9 09:56 @girlscientist Ooooh very pretty multi-color graph of HLA region from Erik Garrison showing multiple variants at once. @ewanbirney must be happy. #bog13
332494508224819200 May 9 09:57 @dgmacarthur EG: no currently available method - neither alignment- nor assembly-based - is sufficient to capture all variants. #bog13
332494512645627904 May 9 09:57 @ewanbirney @girlscientist yup. :) #bog13
332494640366358529 May 9 09:57 @jcbarret RT @bullymom2: EG showing multi-color graph of HLA. wow. #bog13
332494772050722816 May 9 09:58 @matthewherper RT @dgmacarthur: EG: no currently available method - neither alignment- nor assembly-based - is sufficient to capture all variants. #bog13
332495140931375105 May 9 09:59 @notSoJunkDNA Alexis Battle: Characterizing the genetic basis of transcriptome diversity through RNA-sequencing of 922 individuals #bog13
332495168060157953 May 9 10:00 @bullymom2 Alexis Battle on genetics of gene expression #bog13
332495281616736257 May 9 10:00 @bullymom2 AB: 922 individuals, 720K autosomal snps, RNA from whole blood #bog13
332495546034049024 May 9 10:01 @bullymom2 AB: detected potential splicing QTLs (sQTLs) for about 2,851 transcripts #bog13
332495655064981504 May 9 10:01 @Magda_Skipper Battle points out the prevalence of cis regulation in the human genome ; base on eQTL analyst in 922 individuals #bog13
332495729455136770 May 9 10:02 @dgmacarthur Next up is Alexis Battle on RNA-seq of 922 blood samples. Found ~11K expression QTLs, nearly 3K splicing QTLs. #bog13
332495742637854720 May 9 10:02 @jcbarret Alex's Battle: basically every single gene has a cis-eQTL if you have a big enough sample. Data have been going this way for a while #bog13
332495930915954688 May 9 10:03 @Magda_Skipper Battle: distal regulation is less prevalent but has potential for broader effects #bog13
332495956392177665 May 9 10:03 @jcbarret Grr. Alexis Battle. Bloody autocorrect. #bog13
332495957327486976 May 9 10:03 @bullymom2 AB: asks do variants outstide of standard promoter act in cis? or have an indirect effect via a TF, for example? #bog13
332496071840374784 May 9 10:03 @GenomeNathan Battle: finding lots of s(plicing)QTLs...and trans-eQTLs #bog13 #statisticalpowerisgood
332496199930232833 May 9 10:04 @Magda_Skipper Battle: many distal elements might act in cis and affect enhancers #bog13
332496264879017984 May 9 10:04 @girlscientist Alexis Battle: find 803 SNPs affecting expression levels of other multiple genes at a distance. #bog13
332496313247735810 May 9 10:04 @dgmacarthur AB: found 269 variants that appear to affect expression of genes over 1M bases away. Many act in haplotype-specific fashion. #bog13
332496368302186496 May 9 10:04 @bullymom2 AB: found 803 SNPs that affect multiple genes. genes are often colocated (linearly and in 3D by HiC) #bog13
332496583243485184 May 9 10:05 @bullymom2 AB: 56 genes have sQTL >1MB away. possible has effect through 3D interaction. #bog13
332496615812263936 May 9 10:05 @ewanbirney Battle talks about eQTLs on large sample. Powered to look at trans effects. #bog13
332496762948419584 May 9 10:06 @GeneticLiteracy RT @matthewherper: Erik Garrison talking about assembling genomes with low coverage, lots of genomes. (1,000 genomes project) #bog13
332496825909121025 May 9 10:06 @bullymom2 AB shows qqplot that does not look very good, to me. appears overly skewed and am wondering if an adjustment missing #bog13
332496935078465536 May 9 10:07 @leonidkruglyak Continuing last night's theme, physical proximity by HiC is related to co-regulation. #Bog13
332496943194443777 May 9 10:07 @Magda_Skipper Battle: TF and hub-like genes are depleted in eQTLs #bog13
332497000383774721 May 9 10:07 @dgmacarthur AB: genes with more protein-protein interactions are less likely to have genetic variants altering expression. #bog13
332497154537041924 May 9 10:07 @kayellbe A Battle - fantastic work presented at lightening speed. Glad I have notes from Koller's April lecture at the Broad to follow along. #bog13
332497164204908546 May 9 10:07 @GenomeNathan Battle: very few trans-sQTLs. Cites, as example, a cis-eQTL for known splicing factor [no surprise there...]. #bog13
332497359181344768 May 9 10:08 @bullymom2 AB: looks at encode data near their eQTLs and sQTLs. enriched in chip-SEQ annotation and chromatin marks #bog13
332497680154648577 May 9 10:09 @Magda_Skipper Battle: latent regulatory variant model to predict impact of regulatory variants #bog13
332497782596317185 May 9 10:10 @AgnesJTrow RT @scientre: #bog13 @ Cold Spring Harbor Labs MT @matthewherper true fact: the talks here have icons to tell you whether or not you can tweet them.
332497924577705984 May 9 10:10 @bullymom2 AB: model uses EM maximization of logistic model with 'hidden' driver variables #bog13
332497975802732545 May 9 10:11 @GenomeNathan Battle trained an LD-corrected logistic model to integrate potential cis-regulatory effects of gene-flanking allelisms. #bog13
332498269185904640 May 9 10:12 @markgerstein Battle: finding lots of new eqtls. Interested to hear a bit more about the supporting stats but perhaps this is too technical for bog #bog13
332498313511325698 May 9 10:12 @leonidkruglyak Many of the key features of eQTL have remained consistent with what we saw in our original study in 2002: http://www.sciencemag.org/content/296/5568/752.full #Bog13
332498347841695746 May 9 10:12 @bullymom2 AB: also working on environmental effects. smoking has broad impact on expression (but I am worried about qqplot, again) #bog13
332498440779091968 May 9 10:13 @girlscientist Battle has data about some environmental exposures in her 922 indivs. Finding that smoking has very broad impacts on transcriptome. #bog13
332498677841137664 May 9 10:13 @bullymom2 AB shows possible GXE effect on expression (smoking and APOE SNP). (I'm not convinced by the boxplots, though) #bog13
332498719926808576 May 9 10:14 @ewanbirney Eeek. Confounders when we bring in environment variables. Smoking might well be confounded eg to socio econ status #bog13
332498722858602496 May 9 10:14 @matthewherper AB: SNPs that affect APOE expression in smokers, not non-smokers. #bog13
332498841163137025 May 9 10:14 @Magda_Skipper Battle: finds 21 environment specific eQTLs; had some epidemiology information about their individuals #bog13
332498873253785601 May 9 10:14 @GenomeNathan Battle surveyed transcriptomees' lifestyles. Turns out smoking affects many genes' expression, incl. by genotype intxn. #bog13 #whodathunk
332498938793951232 May 9 10:14 @erlichya Battle shows a cool GxE analysis: expression qtl that show effect only with smoking. Awesome! #bog13
332498991038205954 May 9 10:15 @erichhuang RT @matthewherper: I love that at scientist conferences people talk about 9 am being "early in the morning" and "rough." #bog13 #notwallstreet #notpharma
332499060864974848 May 9 10:15 @elhong AB: Continues theme at #bog13 that details of biological inputs (environment, behaviors, aka #metadata) essential for interpreting data
332499112735956992 May 9 10:15 @ewanbirney @bullymom2 I was worried about the first qq plot as well. About long range allele specificity #bog13
332499117353861120 May 9 10:15 @matthewherper Wow. I need to hear that talk again. AB went so fast she lost me, but the environmental effects stuff was fascinating. #bog13
332499223905976322 May 9 10:16 @kayellbe A Battle - RNA-Seq + SNP data + environmental info => SNP affects expression of APOE in smokers but not non-smokers. #justsayno? #bog13
332499272689922049 May 9 10:16 @matthewherper AB APOE expressed in both smokers and non-smokers. Not driven just by expression. #bog13
332499282278088708 May 9 10:16 @bullymom2 I think we need to be skeptical of AB's results. sample size seems small to me. qqplots very skewed and possibly missing adjustment. #bog13
332499328402866177 May 9 10:16 @juansearch #bog13 Battle et al observed an eQTL in APOE for smoking! Very cool!
332499360363470849 May 9 10:16 @GenomeNathan @ewanbirney And of course by genomic susceptibility to nicotine addiction, etc. #bog13
332499403275378689 May 9 10:16 @bullymom2 Also, I think outliers are having undue influence on the smoking by genotype effect. #bog13
332499410342793216 May 9 10:16 @matthewherper Lander Q: could it be not regulation intracellularly, but regulation of what cell types? AB: Maybe. #bog13
332499812882718720 May 9 10:18 @girlscientist Battle got many questions all essentially on the same theme/last slide: we don't know enough yet about confounders and smoking. #bog13
332499870487281664 May 9 10:18 @kayellbe RT @matthewherper: Lander Q: could it be not regulation intracellularly, but regulation of what cell types? AB: Maybe. #bog13
332499937277394944 May 9 10:18 @matthewherper RT @GenomeNathan: @ewanbirney And of course by genomic susceptibility to nicotine addiction, etc. #bog13
332499960434139136 May 9 10:19 @matthewherper . @ewanbirney: couldn't this be correlated to age or some other confounder? #bog13
332500089132163072 May 9 10:19 @ewanbirney @matthewherper watch the confounder thing. There is about 100 years of being burnt by case control studies in epidemiology. #bog13
332500258724642816 May 9 10:20 @tuuliel Great talk by Alexis Battle about regulatory variation. Would be awesome to apply their prediction model on genome seq data #bog13
332500271613751296 May 9 10:20 @kayellbe Question from @denizkural: A neutral theory of variability in gene expression? #bog13
332500278064594944 May 9 10:20 @leonidkruglyak AB: study in case-control depression cohort. Depression correlated with smoking? #bog13
332500879913652226 May 9 10:22 @evolvability RT @notSoJunkDNA: Erik Garrison: Simultaneous assembly of thousands of human genomes #bog13
332501015532294144 May 9 10:23 @evolvability +1 @Magda_Skipper: Garrison may be a rising star on the genomics scenes says Korbel. No pressure... #bog13
332501164753043456 May 9 10:23 @evolvability RT @dgmacarthur: EG: no currently available method - neither alignment- nor assembly-based - is sufficient to capture all variants. #bog13
332501377702047745 May 9 10:24 @dbkell @ewanbirney smoking/class bias well known wrt classic Doll/Peto studies. Also see for bias (and refs therein) http://dbkgroup.org/Papers/broadhurst_kell_metabolomics06.pdf #bog13
332501518873935872 May 9 10:25 @EdwardWinstead RT @ewanbirney: Eeek. Confounders when we bring in environment variables. Smoking might well be confounded eg to socio econ status #bog13
332502128830607360 May 9 10:27 @bioinfosm :) RT "@matthewherper: Jaffe: showing a way of finding variants with DISCOVAR. Makes John Travolta joke. #bog13”
332502220585177089 May 9 10:28 @iangtobin Now if ever there was a wonderfully under-stated hash it has to be #bog13.
332502721099870209 May 9 10:30 @prometheusgreen RT @matthewherper: Erik Garrison talking about assembling genomes with low coverage, lots of genomes. (1,000 genomes project) #bog13
332504011389415425 May 9 10:35 @Ubercoat Just googled "British slang bog" to see why the #bog13 tag is funny to some. Protip: it's not because of wetlands with a peat substrate.
332504854582931456 May 9 10:38 @OmicsOmicsBlog RT @girlscientist: Erik Garrison on behalf of 1000 Genomes Project. #bog13 Project now over 70K gigabases of sequence data.
332505094111236098 May 9 10:39 @OmicsOmicsBlog RT @girlscientist: .@ewanbirney: we should all move to graph-based views of reference sequences [presumably to see variants]. #bog13
332506100257673216 May 9 10:43 @bullymom2 Yun Song on distortion of genealogical properties for very large samples. #bog13
332506300158189569 May 9 10:44 @jcbarret RT @Ubercoat: Just googled "British slang bog" to see why the #bog13 tag is funny to some. Protip: it's not because of wetlands with a peat substrate.
332506325214969857 May 9 10:44 @joe_pickrell Yun Song apologizes for talking theoretical popgen at #bog13
332506640098140161 May 9 10:45 @jcbarret I love the TeX template header showing exactly where we are in the talk. #bog13
332506653557665792 May 9 10:45 @GenomeNathan Sampling with less replacement: Song on how surveying more than a smidgen of a population can flout simple evolutionary models. #bog13
332506711497793536 May 9 10:45 @ThomasMailund Nice. First LaTeX slides #bog13
332506927756095488 May 9 10:46 @anderson_carl Yun Song points out that genetic studies can now have more samples than the estimated effective population size of humans (~10,000) #bog13
332506949486792704 May 9 10:46 @luke__ward Y. Song: Genome study sample sizes are approaching the effective population size of humans (Ne ≈ 10k) #bog13
332507432456687617 May 9 10:48 @GenomeNathan Song quickly reviews how coalescent theory presumes sample << (effective) population. #bog13
332507441151475712 May 9 10:48 @leonidkruglyak Cool: hard-core coalescent theory talk. #bog13
332507522000900097 May 9 10:49 @bullymom2 does effective sample depend on sample being a random susbet and represent the pop'n? does this mean larger samples size ok? #bog13
332507538656489473 May 9 10:49 @00livier @matthewherper this is a major issue in transcriptome and methylome from whole blood: a variable mix of different cell types #bog13
332507819611930624 May 9 10:50 @erlichya Just to highllight: The STReqtl slide in @erikgarrison talk was done with the high valuable RNAseq of the Guvadis project #bog13
332507855989133312 May 9 10:50 @bullymom2 i.e., given a random sample of size n, could the samples' effective size be << n in our current studies? #bog13
332508080485052417 May 9 10:51 @GenomeNathan @leonidkruglyak Droppin' it old school. #bog13
332508101427204096 May 9 10:51 @bullymom2 YS: algorithm allows for simultaneous mergers. most models assume only 2 can merge at single time. #bog13.
332508338552193024 May 9 10:52 @infoecho RT @ewanbirney: Erik garrison also moves to a graph based resolver, and presents other graph methods from the variants #bog13
332508416763387905 May 9 10:52 @joe_pickrell Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332508427685347328 May 9 10:52 @bullymom2 YS: model allows for multiple epochs with differing effective pop'n sizes #bog13
332508555896844288 May 9 10:53 @tuuliel In Erik's talk, eQTLs by 1000G SV & STR groups lacked ref (not cool): the RNAseq data is by Lappalainen et al & Geuvadis Consortium #bog13.
332508630849032193 May 9 10:53 @denizkural .@kayellbe following Kimura, differential expression is real and due to eQTL but no fitness impact. Like most (fixed)mutations. #bog13
332508687275028481 May 9 10:53 @bullymom2 YS: in model, pop'n expansion can differ between epochs #bog13
332508770095755264 May 9 10:54 @GenomeNathan Threesomes welcome at #bog13: Song deploys exact Wright-Fisher model, letting >2 lineages coalesce at once.
332508853864382465 May 9 10:54 @dinazielinski RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332509060995891200 May 9 10:55 @denizkural RT @GenomeNathan: Threesomes welcome at #bog13: Song deploys exact Wright-Fisher model, letting >2 lineages coalesce at once.
332509259520692225 May 9 10:55 @anderson_carl SY models two bottlenecks, one severe. Are these the same as @dgmacarthur ‘s ‘nasty’ Finnish bottlenecks? #bog13
332509336440016896 May 9 10:56 @matthewherper RT @GenomeNathan: Threesomes welcome at #bog13: Song deploys exact Wright-Fisher model, letting >2 lineages coalesce at once.
332509407818698754 May 9 10:56 @bullymom2 YS is estimating the number of lineages lost btw epochs.model shows majority of lineages are lost due to simultaneous 2-merger events #bog13
332509425703219200 May 9 10:56 @leonidkruglyak Exact Wright-Fisher model shows deviations from coalescent assumption (allows simultaneous lineage merges) #bog13
332509501578166275 May 9 10:56 @jcbarret RT @joe_pickrell: Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332509542451654656 May 9 10:57 @GenomeNathan Curious whether Song's theoretical predictions will echo IBD-inferred findings of cryptic (grand+)sibship in samples of many people. #bog13
332509631677079553 May 9 10:57 @adamauton RT @joe_pickrell: Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332509967208833024 May 9 10:58 @bullymom2 YS: why do we care about lost lineages? allele freq dist'n is different depending on the expansion btw epochs. (I think) #bog13
332509992617922560 May 9 10:58 @GenomeNathan Song: Upshot is that exact model predicts more singletons, fewer doubletons than coalescent. #bog13
332510226085462016 May 9 10:59 @girlscientist Well done! Whole session tweetable. #bog13 RT @anshul: @girlscientist I allowed it to be tweetable.
332510282494664704 May 9 11:00 @GenomeNathan [And that, in turn, changes the ancestral population growth contour that we infer] #bog13
332510324567728128 May 9 11:00 @girlscientist Going to completely defer to @leonidkruglyak for tweeting this talk…. #bog13
332510467887091712 May 9 11:00 @bullymom2 YS: multiple coalescent model more closely predicts # of singletons SNV we would see in a sample n that is large compared to Ne #bog13
332510608199131137 May 9 11:01 @kayellbe .@denizkural thanks for the ref: http://en.wikipedia.org/wiki/Neutral_theory_of_molecular_evolution #bog13
332510614847107072 May 9 11:01 @ewanbirney RT @joe_pickrell: Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332510640260407297 May 9 11:01 @GenomeNathan Song: doubleton predictions also touch on q of homoplasy. #bog13
332510695197380612 May 9 11:01 @bullymom2 my tweets of YS are to the best of my ability. it has been a while since I studied popgen. #bog13
332511141286772736 May 9 11:03 @notSoJunkDNA John Marioni: "A general approach to account for technical noise in single-cell RNA-seq experiments" #bog13
332511193187090435 May 9 11:03 @bullymom2 John Marioni on noise in single-cell RNA-seq experiments #bog13
332511264578338816 May 9 11:03 @robin_andersson Marioni on technical noise in single-cell RNA-seq experiments. #bog13
332511317598539776 May 9 11:04 @leonidkruglyak Question I didn't get to ask: what's the intuition for multiple mergers having opposite effects in constant vs growing populations? #bog13
332511336024129537 May 9 11:04 @marianlturner @girlscientist @anshul tweetpeer pressure #bog13
332511347579420672 May 9 11:04 @matthewherper Marioni: Trying to go beyond an average of cells to assaying expression at the single cell level. #bog13
332511412104622080 May 9 11:04 @JavierHerrero7 Next up is John Marioni on single cell RNAseq data analysis. #bog13
332511414772187137 May 9 11:04 @bullymom2 JM: some biological processes need to be assayed at single cell level: cancer, brain, early development #bog13
332511465623932928 May 9 11:04 @matthewherper M: Cancer and early development require looking at single cells. #bog13
332511505536909312 May 9 11:04 @anderson_carl Marioni describing his cool method for controlling for technical noise in single cell expression studies #bog13
332511541826039810 May 9 11:05 @GholsonLyon My awesome analyst @JasonORawe will present poster w some new WGS data later today. #bog13 http://lyonlab.cshl.edu/presentations/Variant_calling_poster2.pdf
332511681865449473 May 9 11:05 @matthewherper JM: For each cell assay the expression profile has been changed from one cell to another. #bog13
332511834454257665 May 9 11:06 @bullymom2 JM: which genes have high expression variability across a pop'n of cells? #bog13
332511862845472768 May 9 11:06 @girlscientist John Marioni next on reducing technical noise from single cell RNA-seq. Moving from current focus on global trends to specific genes. #bog13
332511913600774145 May 9 11:06 @matthewherper JM: But no attempt has been made to identity specific genes that vary a lot across what looked like homogenous populations. #bog13
332511919263084544 May 9 11:06 @Magda_Skipper Marioni: no attempt has been made to ID variation in gene expression from single cell RNAseq #bog13
332511969678606337 May 9 11:06 @johnpharmd RT @GholsonLyon: My awesome analyst @JasonORawe will present poster w some new WGS data later today. #bog13 http://lyonlab.cshl.edu/presentations/Variant_calling_poster2.pdf
332512070631309315 May 9 11:07 @GenomeNathan Cellular alone time: Marioni lists q's that can be answered only by looking at exactly 1 cell at a time. #bog13
332512071726014467 May 9 11:07 @ggsimpsonrna RT @dgmacarthur: Next up is Alexis Battle on RNA-seq of 922 blood samples. Found ~11K expression QTLs, nearly 3K splicing QTLs. #bog13
332512123274014720 May 9 11:07 @notSoJunkDNA JM: illustrate how lower amount of cells increases technical noise #bog13
332512142769127426 May 9 11:07 @assemblathon Lots of great assembly-related tweets coming out I’d the #bog13 meeting today.
332512304505696257 May 9 11:08 @mortm RT @ewanbirney: Erik garrison also moves to a graph based resolver, and presents other graph methods from the variants #bog13
332512327549202434 May 9 11:08 @mortm RT @dgmacarthur: EG: no currently available method - neither alignment- nor assembly-based - is sufficient to capture all variants. #bog13
332512406792196096 May 9 11:08 @bullymom2 JM: want to identify genes whose biological variability across cells is > than technical variability #bog13
332512699948863489 May 9 11:09 @notSoJunkDNA JM: solution with spike ins (50pg RNA pool of HeLa cells). it's in Arabidopsis #bog13
332512822258982913 May 9 11:10 @robin_andersson Marioni: technical noise dependent on expression level. Expected but nice to see for single-cell RNA-seq. #bog13
332512853997260800 May 9 11:10 @GenomeNathan Cellular Heisenbergia: Marioni notes that the fewer cells you focus on, the noisier your data. #bog13
332513156507246593 May 9 11:11 @GenomeNathan RT @notSoJunkDNA: JM: solution with spike ins (50pg RNA pool of HeLa cells). it's in Arabidopsis #bog13
332513413009924096 May 9 11:12 @JavierHerrero7 JM compares technical and biological varaibility by quantifying HeLa RNA spike ins into arabidopsis cells #bog13
332513667847434241 May 9 11:13 @matthewherper JM: Get a p value that will be high if the gene is variable. Shows technical vs. biological. MAgenta cloud has significant variation. #bog13
332513668031991811 May 9 11:13 @bullymom2 JM: calculates an expected variance as a quadratic sum of tech and biol variation. I'm not sure how this model applies to prob #bog13
332513891462557696 May 9 11:14 @matthewherper #bog13 JM: These are genes that are highly expressed and variable. These 1038 genes in heat map. lots high or low compared to avg.
332514010899566593 May 9 11:14 @GenomeBiology John Marioni's #bog13 talk is on single-cell RNA-seq technical noise - see his recent GB paper for more on this work http://bit.ly/11581XC
332514021846687746 May 9 11:14 @matthewherper #bog13 cells that make sense -- the sixth cell seemed to be stressed -- "a robust transcriptional snapshot."
332514024451358720 May 9 11:14 @gokcumen RT @casey6r0wn: Dear guy watching a cat movie on your iPad in grace auditorium. Thank you. Plenty of bandwidth to go around. #bog13
332514044428816384 May 9 11:15 @notSoJunkDNA @matthewherper but without a scale…. #bog13
332514086862589952 May 9 11:15 @Magda_Skipper Marioni: using Arabidopsis data IDed ~1000 highly variable genes between cells; they are also highly expressed #bog13
332514226797166592 May 9 11:15 @notSoJunkDNA RT @GenomeBiology: John Marioni's #bog13 talk is on single-cell RNA-seq technical noise - see his recent GB paper for more on this work http://t.co/VVBiqmnh3q
332514366765268993 May 9 11:16 @sameersoi RT @joe_pickrell: Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332514417969348609 May 9 11:16 @JavierHerrero7 JM detects 1000+ genes differencialy expressed among 7 single cells. #bog13
332514474449842179 May 9 11:16 @bullymom2 JM: anyone want to explain what a spike in is? #bog13
332514474735054848 May 9 11:16 @ewanbirney John can find the transcripts that define the per individual cell differences - accounting from technical noise. Very cool. #bog13
332514506565627904 May 9 11:16 @GenomeNathan Six little cells: Marioni found that 1 cell distinctively expressed stress response genes. Wonders whether capture stressed it out. #bog13
332514715559395328 May 9 11:17 @markgerstein Marioni: nice analysis getting at true biological expr variation across cells by comparing it to tech variation from hela spike-in #bog13
332514862452318208 May 9 11:18 @robin_andersson Nice talk by Marioni on how technical noise could be dealt with by spike-ins allowing to ID genes that vary between individual cells #bog13
332514906165362689 May 9 11:18 @JavierHerrero7 JM presents the new Sanger-EBI single-cell center http://po.st/VReV6O #bog13
332515063778918400 May 9 11:19 @4a6a5a RT @JavierHerrero7: JM compares technical and biological varaibility by quantifying HeLa RNA spike ins into arabidopsis cells #bog13
332515136457826304 May 9 11:19 @notSoJunkDNA Q. to JM: can you study allelic expression at the single-cell level? A: thinking about it, some ideas to do it #bog13
332515154631733249 May 9 11:19 @4a6a5a RT @JavierHerrero7: JM detects 1000+ genes differencialy expressed among 7 single cells. #bog13
332515173380268032 May 9 11:19 @4a6a5a RT @JavierHerrero7: JM presents the new Sanger-EBI single-cell center http://po.st/VReV6O #bog13
332515506953265153 May 9 11:20 @notSoJunkDNA @GenomeNathan I think here it's a way to model technical noise and capture biological variability. #bog13
332515580034818052 May 9 11:21 @BioMedCentral RT @GenomeBiology: John Marioni's #bog13 talk is on single-cell RNA-seq technical noise - see his recent GB paper for more on this work http://t.co/VVBiqmnh3q
332515793545867264 May 9 11:21 @davetang31 RT @GenomeBiology: John Marioni's #bog13 talk is on single-cell RNA-seq technical noise - see his recent GB paper for more on this work http://t.co/VVBiqmnh3q
332516070055370752 May 9 11:23 @notSoJunkDNA Ekta Khurana from @markgerstein's lab "Interpretation of genomic variants using a unified biological network approach" #bog13
332516073519865856 May 9 11:23 @bullymom2 Ekta Khurana on interpretation of genomiv variants using a unified biological network approach #bog13
332516254801883136 May 9 11:23 @girlscientist Ekta Khurana from @markgerstein lab on the theme of the morning, interpretation of genomic variants. She's using a network annotation #bog13
332516338767646720 May 9 11:24 @notSoJunkDNA EK: go from "linear genome annotation" to "network annotation" #bog13
332516341993046016 May 9 11:24 @matthewherper Ekta Khurana on using a network annotations instead of linear genome annotation. #bog13
332516459139960832 May 9 11:24 @matthewherper EK how does the whole biological system tolerate a damaged gene? #bog13
332516569689235456 May 9 11:25 @bullymom2 EK: (polyphen, sift) annotation is usually done using linear approach. new method uses network information. #bog13
332516720734507008 May 9 11:25 @GenomeNathan Khurana: Can we better assess functional relevance of variants (in same genome?) jointly, via network robustness, than singly? #bog13
332516789802115072 May 9 11:25 @bullymom2 EK: protein protien interaction network. more highly connected genes under higher selection. #bog13
332516922996441091 May 9 11:26 @RecallPropecia RT @matthewherper: EK how does the whole biological system tolerate a damaged gene? #bog13
332517080639365120 May 9 11:27 @luke__ward E.Khurana: "linear" (cons, fxn overlap) vs "network" annot of variants. classify genes on spectrum LoFtolerant-Neut-GWAS-HGMD-Essent #bog13
332517084514897920 May 9 11:27 @bullymom2 EK: also uses 3D protein structure of interacting proteins. SNVs at domains of interaction more likely to disrupt the interaction. #bog13
332517406348038144 May 9 11:28 @Magda_Skipper Khurana's talk reminds me of marc Vidal's 'edgetics'#bog13
332517614813315072 May 9 11:29 @bullymom2 EK: genes in/near center of a regulatory and biological networks tend to be essential. opposite in metabolic network! #bog13
332517653489004544 May 9 11:29 @dgmacarthur Ekta Khurana discussing network analyses of human genetic variation - see her recent paper: http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1002886 #bog13
332517740558565378 May 9 11:29 @hardikshah007 RT @dgmacarthur: Ekta Khurana discussing network analyses of human genetic variation - see her recent paper: http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1002886 #bog13
332517934947790848 May 9 11:30 @bullymom2 EK: In metabolic networks, essential genes have lots of duplicates/other genes that do same function; can tolerate variation. #bog13
332518607651213312 May 9 11:33 @bullymom2 EK: integrates all these ways of looking at gene interactions and looking at multiple networks simultaneously #bog13
332518630669557761 May 9 11:33 @Magda_Skipper Khurana: gene essentiality is relative #bog13
332518663951351810 May 9 11:33 @luke__ward EK: positively selected genes (by Fst) tend to be at network periphery (by PPI). Opposite trend for promoters. interesting result! #bog13
332518976997429248 May 9 11:34 @bullymom2 EK: unified network has ~15K nodes (genes) and ~110K edges (interactions). Has 3D video showing the multinet #bog13
332518979774070784 May 9 11:34 @laurastephen @bullymom2 basic idea explained by wikipedia http://en.wikipedia.org/wiki/RNA_spike-in for rnaseq the rna is added to the sequencing experiment #bog13
332518981376290816 May 9 11:34 @jcbarret Rotating "multinet" viz reminds me of Death Star. #bog13
332519070995976192 May 9 11:34 @notSoJunkDNA EK: movie of the network thanks to collaboration with @ZeynepHG #bog13
332519184841965570 May 9 11:35 @Magda_Skipper RT @jcbarret: Rotating "multinet" viz reminds me of Death Star. #bog13
332519444964311040 May 9 11:36 @bioinfosm nice #genomics work! MT @dgmacarthur EK discussing network analyses of human genetic variation - http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1002886 #bog13 @PLOSCompBiol
332519496701075456 May 9 11:36 @bullymom2 I wonder if EK's model includes changes to/from cysteine for proteins in cellular wall since folding can be dramatically affected #bog13
332519696660328449 May 9 11:37 @GenomeNathan StereoHairball: Khurana shows nice movie of gene intx'n network, making structure discernible. Orbital debris meets dandelion fluff? #bog13
332519752792674304 May 9 11:37 @GenomeBiology Khurana- Looking at the bigger picture: systems level effects of deleterious mutations #bog13
332519869683748865 May 9 11:38 @notSoJunkDNA . @GenomeNathan The movies are posted here: http://archive.gersteinlab.org/mark/out/log/2013/05.03/talk/multi-gif-movies/ #bog13
332519914873163777 May 9 11:38 @egonwillighagen RT @GenomeBiology: Khurana- Looking at the bigger picture: systems level effects of deleterious mutations #bog13
332520351827361792 May 9 11:40 @notSoJunkDNA . @ewanbirney puts on his skeptical hat… "your finding confirms what we knew" #bog13
332520530433425408 May 9 11:40 @Mirimus Attending the Biology of Genomes 2013 Conference? Look for Mirimus on your Genome Research t-shirt! #BOG13 #nygenome #CSHL @cshlmeetings
332520578714042369 May 9 11:40 @erikgarrison @ewanbirney so what was the second question for EK? #bog13
332520624738140160 May 9 11:41 @notSoJunkDNA Anshul Kundaje: "Comparative analysis of chromatin state dynamics across organisms, cell types and individuals" #bog13
332520675417939970 May 9 11:41 @tuuliel Great talk by my CSHL room mate and 1000G FIG collaborator Ekta Khurana about using networks to interpret genetic variation. #bog13
332520684293062656 May 9 11:41 @bullymom2 Anshul Kandaje on chromatin state dynamics across organisms, cell types and individuals. #bog13
332520722842927104 May 9 11:41 @luke__ward .@ewanbirney points out that corr btw [gene essentiality] ~ [centrality to annotated networks] is confounded by how well-studied #bog13
332520805315510272 May 9 11:41 @girlscientist Ending with @anshul on chromatin state dynamics across all of the things. So to speak. #bog13
332521049948311553 May 9 11:42 @bioinfosm with descriptive tweets, i cud imagine the actual video :) MT @notSoJunkDNA EK: movie of the network in collaboration with @ZeynepHG #bog13
332521225429606400 May 9 11:43 @bullymom2 AK: uses hidden Markov Model to calculate hierarchical chromatin states to get a 1D view. (I think) #bog13
332521578111827970 May 9 11:44 @bullymom2 AK: chromHMM using a training data set across species and cell types.(worm, fly, human lymphoblastoid) #bog13
332521748492861440 May 9 11:45 @ewanbirney @anshul doing chromhmm across human worm and fly jointly. Slightly amazed this works at all. #bog13
332521859092447232 May 9 11:46 @notSoJunkDNA #bog13. Please stop calling @anshul on his cell phone!
332521872417763329 May 9 11:46 @ZeynepHG RT @notSoJunkDNA: EK: movie of the network thanks to collaboration with @ZeynepHG #bog13
332522309657190400 May 9 11:47 @bullymom2 AK: promoters at highly expressed genes have similiar signatures. those at low activity genes, have distinct signatures. #bog13
332522412627337216 May 9 11:48 @markgerstein . @luke__ward @ewanbirney pt reasonable for a few networks but the thrust of interactomic datasets is unbiased coverage #bog13
332522478918328322 May 9 11:48 @Magda_Skipper Kundaje: human, fly, eorm@comparisons - distinct chromatin marks for highly active Nd less active promoters #bog13
332522599122890752 May 9 11:49 @robin_andersson Kundaje: composition of HMs different at repressed genes in human, fly and worm #bog13
332522599961743360 May 9 11:49 @ewanbirney Hmm. Out of questions. But the question here is whether the artificiality of training into one model forces some these observations #bog13
332522636196327429 May 9 11:49 @luke__ward .@anshul ChromHMM on expanding # of species/individ/tissues. Histone mod at high-exp genes similar x-species; divergent at low-exp #bog13
332523083523051520 May 9 11:50 @bioinfosm really like his iPapers collection! https://sites.google.com/site/anshulkundaje/ipapers-1 MT @bullymom2: @anshul chromatin state dynamics across organisms.. #bog13
332523308249665537 May 9 11:51 @erikgarrison @tuuliel @erlichya Many apologies, the Geuvadis set is an awesome resource and omission of reference doesnt help anyone. #bog13
332523334950612992 May 9 11:51 @bullymom2 AK: learned joint chromatin states acorss 90 human cell types using chromHMM #bog13
332523337563639808 May 9 11:51 @OmicsOmicsBlog RT @GenomeNathan: Cellular Heisenbergia: Marioni notes that the fewer cells you focus on, the noisier your data. #bog13
332523498876596225 May 9 11:52 @ewanbirney @ewanbirney correlation plot helps get at this. But the multi cell headache sticks. #bog13
332523540056256512 May 9 11:52 @bioinfosm RT @markgerstein @luke__ward @ewanbirney pt reasonable for few networks but the thrust of interactomic datasets is unbiased coverage #bog13
332523581332402176 May 9 11:52 @Magda_Skipper Kundaje: uses 90/190 or so Epigrnome Roadmap call types to compare chromatin states across cell types #bog13
332523990964899840 May 9 11:54 @Magda_Skipper Kundaje builds cell lineage trees from Epigenome info #bog13
332524000129470464 May 9 11:54 @bullymom2 AK: ~500K enhancer-like regions predicted. created a lineage tree based on chromatin marks. tree ends up grouped by cell types #bog13
332524017451933696 May 9 11:54 @OmicsOmicsBlog RT @dgmacarthur: AB: genes with more protein-protein interactions are less likely to have genetic variants altering expression. #bog13
332524624464211968 May 9 11:57 @bullymom2 AK: also linked enhancers with genes and found 1-1 relationships between enhancer modules and gene modules. #bog13
332524631741329409 May 9 11:57 @girlscientist .@anshul finds cell-type specific enhancers and then developed model to link them to genes. These overlap with ChIA-PET data. Nice. #bog13
332525083094564865 May 9 11:58 @Magda_Skipper Three talks for the price of one... #bog13
332525100962299904 May 9 11:58 @bullymom2 AK: used chromHMM across 19 individuals. saw extensive variation in enhancer activity #bog13
332525155022688257 May 9 11:59 @EncodeDCC AK integrates ENCODE, modENCODE, Epigenomics data. Poster #320 by Seth Strattan Fri shows plans for searching across these datasets. #bog13
332525223591153664 May 9 11:59 @bullymom2 the morning #bog13 talks were awesome. so much fun!
332525292008640513 May 9 11:59 @luke__ward Re @anshul's talk, if youre interested in specific disease, see my poster tmw for ginormous heatmap of gwas/roadmap enhancer overlap #bog13
332525379120160769 May 9 12:00 @robin_andersson How much does manual naming of chrom. states affect the downstream analyses? Seems it is mainly three HMs that govern the naming #bog13
332525690245230592 May 9 12:01 @EncodeDCC … and poster #146 today at 2pm to learn about how using #ontologies for #metadata can help integrate datasets #bog13
332527839930904577 May 9 12:09 @bioinfosm MT @EncodeDCC: @anshul integrates #ENCODE, modENCODE, Epigenomics data. Poster #320 Fri shows plans searching across these datasets #bog13
332528586240180224 May 9 12:12 @jgiannopoulou RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332530865433346049 May 9 12:21 @Mirimus Mirimus specializes in engineering customized mouse models with reversible gene silencing capability by harnessing the power of RNAi. #bog13
332531554138062849 May 9 12:24 @JavierHerrero7 More specifically, on genome assembly assessment MT @ensembl: #bog13 #Ensembl poster today #144 Comparative Genomics (J. Herrero)
332531556503678977 May 9 12:24 @ensembl More specifically, on genome assembly assessment MT : #bog13 #Ensembl poster today #144 Comparative Genomics (J. Herrero) via ^Javier (compa
332533751429079040 May 9 12:33 @bionanogenomics Great discussions at #bog13. Did you miss it? See how Irys genome maps can help your research. http://bit.ly/15qgO8R http://t.co/7nNmZbnPUS
332535403888398336 May 9 12:39 @bioinfosm funny why this @CeeLoGreen @ediets promoted tweet shows up on my #BOG13 search; definitely not all the DISCOVAR.. wondering why..
332543018399825921 May 9 13:10 @dnatimes RT @dgmacarthur: Ekta Khurana discussing network analyses of human genetic variation - see her recent paper: http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1002886 #bog13
332543109797904384 May 9 13:10 @dnatimes RT @notSoJunkDNA: EK: go from "linear genome annotation" to "network annotation" #bog13
332544940045393920 May 9 13:17 @notSoJunkDNA Mike Snyder on Phased genomes with the Moleculo technology in the @illumina workshop. Not sure it's tweetable but it's cool. #bog13
332545031737061376 May 9 13:18 @mjcgenetics RT @dgmacarthur: EG: no currently available method - neither alignment- nor assembly-based - is sufficient to capture all variants. #bog13
332546243651833856 May 9 13:22 @gknoProject @bioinfosm but wouldn't it be cool if Ceelo performed at #bog13? :)
332548809706045440 May 9 13:33 @EduEyras RT @notSoJunkDNA: Anshul Kundaje: "Comparative analysis of chromatin state dynamics across organisms, cell types and individuals" #bog13
332549230617034752 May 9 13:34 @SeqComplete RT @erlichya: Don't miss tweets from #BoG13. http://bit.ly/15BR1KP You can see all of them in this Google Doc. Automatically updated every 1min.
332549691961122817 May 9 13:36 @lexnederbragt YES! RT @girlscientist: .@ewanbirney: we should all move to graph-based views of reference sequences [presumably to see variants]. #bog13
332549898249580545 May 9 13:37 @lexnederbragt RT @ewanbirney: @girlscientist for everything in my view - not just variants. Annotation as well, chip-seq processing, RNA ... #bog13
332550787895013376 May 9 13:41 @lexnederbragt RT @dgmacarthur: EG: no currently available method - neither alignment- nor assembly-based - is sufficient to capture all variants. #bog13
332551328373022720 May 9 13:43 @4a6a5a RT @JavierHerrero7: More specifically, on genome assembly assessment MT @ensembl: #bog13 #Ensembl poster today #144 Comparative Genomics (J. Herrero)
332552505361825794 May 9 13:47 @bioinfosm @gknoProject awesome feedback for the #BOG13 organizers looking forward to #BOG14!!
332555042240475137 May 9 13:57 @bioinfosm Nice #genomics write-up relevant to the #BOG13 crowd! RT @DivaBiotech Genomics, Biotechnology's Oldest Next Big Thing http://shrd.by/58O1vx
332556317631844352 May 9 14:02 @mwilsonsayres RT @joe_pickrell: Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332557882329542656 May 9 14:09 @aphillippy RT @girlscientist: .@ewanbirney: we should all move to graph-based views of reference sequences [presumably to see variants]. #bog13
332560529635819520 May 9 14:19 @loronet :-))) RT @joe_pickrell Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332563225243684864 May 9 14:30 @gokcumen RT @loronet: :-))) RT @joe_pickrell Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332564430967681024 May 9 14:35 @razibkhan RT @loronet: :-))) RT @joe_pickrell Yun Song: mortals use simulations and approximations. We do not. (I'm paraphrasing) #bog13
332565417249894400 May 9 14:39 @JacobFDegner Chromatin and Epigenetics (#emblevents) was methadone for my #bog13 withdrawal. My highlights from day 2 to follow.
332566836224860160 May 9 14:44 @notSoJunkDNA I think that cherry tree is #CSHL homage to Elaine Mardis #pink #spring #bog13 http://t.co/m2Q9OHiDtI
332568200103460865 May 9 14:50 @zsgenetics RT @notSoJunkDNA: I think that cherry tree is #CSHL homage to Elaine Mardis #pink #spring #bog13 http://t.co/m2Q9OHiDtI
332572371871477760 May 9 15:06 @darrenlogan RT @anderson_carl: Marioni describing his cool method for controlling for technical noise in single cell expression studies #bog13
332575096222924800 May 9 15:17 @drbachinsky RT @dgmacarthur: Ekta Khurana discussing network analyses of human genetic variation - see her recent paper: http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.1002886 #bog13
332576115405234178 May 9 15:21 @GenomeNathan RT @notSoJunkDNA: . @GenomeNathan The movies are posted here: http://archive.gersteinlab.org/mark/out/log/2013/05.03/talk/multi-gif-movies/ #bog13
332582563178762240 May 9 15:47 @ewanbirney Poster session at #bog13 great. Loving the human history cases eg poster 234 about Caribbean and South American populations
332583867078811649 May 9 15:52 @Piwdb Sad to miss #bog13 but the feed has been pretty good so far... Will there be a prize for tweep with most bog-tweets?
332584086382206976 May 9 15:53 @ewanbirney Also a good number of non human trait QTL studies - Richard mott's hs mice showing parent of origin effects poster 236 #bog13
332593608605708289 May 9 16:31 @GenomeNathan ELSI time: Greely moderates well attended panel on non-invasive prenatal genetic testing, and the like. #bog13
332593712582508544 May 9 16:31 @notSoJunkDNA Introduction to the ELSI Panel by Hank Greely (Stanford). #bog13
332593792010035200 May 9 16:31 @spreadscienced RT @notSoJunkDNA: Introduction to the ELSI Panel by Hank Greely (Stanford). #bog13
332594010285809664 May 9 16:32 @bullymom2 Hank Greely is cool. I could listen to him for hours. #bog13
332594367464366080 May 9 16:34 @bullymom2 Hank Greely proposes that correlation is causation... #bog13 ;)
332594496946716672 May 9 16:34 @GenomeNathan Greely: 'Quantity' = post-Graduate 'Plastics'. Says it's why reproductive genetic tests may change us more than earlier innovations. #bog13
332594513975603200 May 9 16:34 @girlscientist .@HankGreelyLJSU detailing how cheap and widely available WGS will change reproductive decisions on large scale. #bog13
332594732565934081 May 9 16:35 @girlscientist correction: @HankGreelyLSJU is the handle. If you're not following his work, you should be. #bog13
332594989928415232 May 9 16:36 @GenomeNathan [Greely apparently referring to scale of seq data, amount of tissue needed, other fast-changing quantities key to process] #bog13
332595041933611009 May 9 16:36 @girlscientist Gonna try the other tweet again too. "Hank Greely: we are on the edge of a revolution that will affect our entire species. #bog13"
332595665257496576 May 9 16:39 @notSoJunkDNA Overview of Technology and Clinical Integration. Ronald Wapner (Columbia U. Med. Center) #bog13
332595970367946752 May 9 16:40 @girlscientist Next up in ELSI session: Ronald Wapner of Columbia. Covering screening of fetal DNA in maternal blood. #bog13
332596288413646848 May 9 16:41 @notSoJunkDNA RT @girlscientist: correction: @HankGreelyLSJU is the handle. If you're not following his work, you should be. #bog13
332596466445058048 May 9 16:42 @evolvability RT @girlscientist: .@HankGreelyLJSU detailing how cheap and widely available WGS will change reproductive decisions on large scale. #bog13
332596505607274496 May 9 16:42 @GenomeNathan Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332596611534430208 May 9 16:43 @razibkhan RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332596801054052352 May 9 16:43 @evolvability RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332596863490473985 May 9 16:44 @girlscientist Wapner: As of March 2013, 4 companies offering fetal DNA screening from maternal blood, to clinicians. Stresses this is screening. #bog13
332597115404562432 May 9 16:45 @pathogenomenick RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332597332300398594 May 9 16:45 @GenomeBiology #bog13 screening also extended to sex chromosome abnormalities. Wapner.
332597342903607296 May 9 16:46 @GenomeNathan Wapner: cffDNA screen -much- better than maternal age (convention) as criterion for invasive trisomy testing. #bog13
332598044640043008 May 9 16:48 @GenomeNathan Wapner: LIkewise, copy number arrays much finer than karyotyping for screening clinically relevant indels. #bog13
332598334097338368 May 9 16:49 @mwilsonsayres RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332599161058906112 May 9 16:53 @notSoJunkDNA Benjamin Berkman (NHGRI) on Ethical Challenges. He promised some controversial personal views…. #bog13
332599671023337472 May 9 16:55 @GenomeNathan RT @notSoJunkDNA: Benjamin Berkman (NHGRI) on Ethical Challenges. He promised some controversial personal views…. #bog13
332599842855608320 May 9 16:55 @girlscientist Benjamin Berkman of NIH Dept of Bioethics. Categories of info we'll return from WGS vastly different from current prenatal testing. #bog13
332599975731142656 May 9 16:56 @mwilsonsayres RT @GenomeBiology: #bog13 screening also extended to sex chromosome abnormalities. Wapner.
332600401440423936 May 9 16:58 @notSoJunkDNA BB: The challenge of too much information. No more perfect babies (depending the threshold for perfection) #bog13
332600441869316096 May 9 16:58 @GenomeNathan Berkman: Will prenatal genetic testing mean parents deem their kids [gasp] imperfect? #bog13
332600573679505408 May 9 16:58 @girlscientist Berkman: psychological challenge for parents in knowing much about child's future illness, not having illusion of perfection. #bog13 [Hmmm.]
332600679120125952 May 9 16:59 @GenomeBiology #bog13 Wapner mentions kitzmann / shendure whole genome cell free sequencing. Kitzmann will discuss this work at #btg13.
332601299398950914 May 9 17:01 @notSoJunkDNA BB: Prenatal testing involves a future adult who may not want to know about genetic information #bog13
332601604559745024 May 9 17:02 @nextgenseek RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332601727192793088 May 9 17:03 @OmicsOmicsBlog RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332601786978402304 May 9 17:03 @nextgenseek RT @notSoJunkDNA: BB: Prenatal testing involves a future adult who may not want to know about genetic information #bog13
332601929165320193 May 9 17:04 @ewanbirney RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332602473497890816 May 9 17:06 @Magda_Skipper Cho: genetic tests are not clearly regulated in the US, with clear standards for safety and efficacy #bog13
332602689122889728 May 9 17:07 @girlscientist Mildred Cho: pregnant women "are not down with the big needle" from amnio/CVS and would rather have noninvasive screen! #bog13
332603062160080898 May 9 17:08 @hysell RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332603483373072387 May 9 17:10 @girlscientist Cho: in fact researchers who developed noninvasive prenatal testing say their own pregnancy experiences led them to work on it….#bog13
332603582484447232 May 9 17:10 @GenomeNathan Cho notes that stakeholders (moms, docs, et al.) differentially weigh key factors in NIPGT (fetal/mom health, cost, rash followup). #bog13
332603783613906946 May 9 17:11 @Magda_Skipper Cho: Steve Quake admitted that his wife's prenatal testing experience motivated him to work towards noninvasive approach #bog13
332604414881841152 May 9 17:14 @girlscientist Cho showing that % of people feeling knowingly having a child w/genetic disorder is "wrong" varies widely between countries. #bog13
332604902096379904 May 9 17:16 @pop_gen_JED Beef producers will have to deal with same fallacy MT @GenomeNathan BB Will genetic testing mean parents deem kids [gasp] imperfect? #bog13
332605066336948226 May 9 17:16 @GholsonLyon Would recommend reading Solomon's book re: human diversity & individuality. #bog13 http://www.amazon.com/Far-From-Tree-Children-Identity/dp/0743236718/ref=sr_1_1?ie=UTF8&qid=1368134007&sr=8-1&keywords=solomon+andrew
332605283543179265 May 9 17:17 @GenomeNathan Cho summarizes great diversity of surveyed views (by country, stake, etc.) on NIPGT and followup. #bog13
332605383904481280 May 9 17:17 @girlscientist Shubha Chandrasekharan, Duke: Analysts say prenatal diagnostics market seen as $1.3B worth, and segment of active growth. #bog13
332605432294154241 May 9 17:18 @GholsonLyon finally someone showing the moneyed interested involved in NIPT. $$$ #bog13
332605473419300864 May 9 17:18 @mwilsonsayres .@notSoJunkDNA Parents care about their child's health and treatment after birth, why not start before? #bog13
332605917017284609 May 9 17:20 @gokcumen RT @GholsonLyon: finally someone showing the moneyed interested involved in NIPT. $$$ #bog13
332605935266709505 May 9 17:20 @GenomeNathan Chandrasekharan: Sometimes cell-free won't cut it (e.g., potentially discordant twins, etc.). Intact-cell fetal genomics coming too. #bog13
332606028120207360 May 9 17:20 @GenomeNathan RT @GholsonLyon: finally someone showing the moneyed interested involved in NIPT. $$$ #bog13
332606187130462208 May 9 17:21 @girlscientist Chandrasekharan: At least 100 patent applications relating to cell-free fetal DNA pending at US PTO. #bog13
332606476260622336 May 9 17:22 @girlscientist SC: those 4 companies offering non-invasive prenatal testing? Entangled in a web of suits and countersuits of each other. #bog13
332607010476539904 May 9 17:24 @notSoJunkDNA RT @GholsonLyon: finally someone showing the moneyed interested involved in NIPT. $$$ #bog13
332607281235636224 May 9 17:25 @GenomeNathan Chandrasekharan shows digraph of litigation among prenatal testing companies. Or is that a complex gene interaction network? #bog13
332607779682521088 May 9 17:27 @bioinfosm RT @GenomeBiology #bog13 Wapner mentions kitzmann / shendure whole genome cell free #sequencing. Kitzmann will discuss this work at #btg13.
332607892609957888 May 9 17:27 @OmicsOmicsBlog RT @girlscientist: Chandrasekharan: At least 100 patent applications relating to cell-free fetal DNA pending at US PTO. #bog13
332607995596898305 May 9 17:28 @GenomeNathan Greely to panel: What worries each of you most about NIPGT and the like? #bog13
332608023589687296 May 9 17:28 @mgaldzic RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332608151755042816 May 9 17:28 @GenomeNathan Cho: Market fervor before tests are accurate enough. #bog13
332608411059507201 May 9 17:29 @danrdanny Does this surprise anyone? RT @GenomeNathan: Cho: Market fervor before tests are accurate enough. #bog13
332608792942497793 May 9 17:31 @GenomeNathan Berkman: Extemporaneous (demand-, rather than utility-driven) adoption. #bog13
332609289854283776 May 9 17:33 @GenomeNathan Wapner: Patients' lack of understanding of procedures/results, reflecting shortage of expert caregiver-hours. #bog13
332609382523232256 May 9 17:33 @notSoJunkDNA @mwilsonsayres that's the key at a population-level: education! Are you at #bog13?
332609601772068865 May 9 17:34 @GenomeNathan Chandrasekharan: Poor's lack of access to needed tests -- but also possible abuse (sex selection, etc.) #bog13
332609665185751040 May 9 17:34 @GenomeNathan Greely: Coercion, including within families. #bog13
332609708403859456 May 9 17:35 @cboustred RT @aaronquinlan: Check out Ryan Layer's poster no. 185 on LUMPY, our probabilistic SV discovery tool. #bog13 http://quinlanlab.org/software.html
332611167979716608 May 9 17:40 @mwilsonsayres @notSoJunkDNA I wish I was at #bog13, but really enjoying the #bog13 tweets. I'll be at #smbe13
332614983189925890 May 9 17:56 @ngsgene @mwilsonsayres @notSoJunkDNA neither agree nor disagree - but from a kid's perspective it shud be solely their decision not parents' #bog13
332615886026444800 May 9 17:59 @erlichya @obahcall this is for you! Hummus world... #bog13 http://t.co/BEXez4dgth
332617093923094528 May 9 18:04 @GenomeNathan Q to panel: Given conundra of tests and broader political/healthcarescape, how do we start discussing NIPGT with layfolk? #bog13
332617333828882433 May 9 18:05 @GenomeNathan Cho: Professional societies should lead discussion from bully pulpit. #bog13
332617376996675584 May 9 18:05 @mwilsonsayres @ngsgene @notSoJunkDNA No. Should be balanced w/ 1-the parents' responsibility to provide med care, 2-potential impact on mom's body #bog13
332617381232918528 May 9 18:05 @danrdanny North Dakota has a law making it a felony to term a preg based on genetic info!? That's going to make clinicians want to work there. #bog13
332617565484482562 May 9 18:06 @danrdanny Nailed it: "here, we're so afraid of lawyers…". Genetic tests aren't always clear. #bog13
332617624477392897 May 9 18:06 @GenomeNathan Chandrasekharan: Start by talking about it with the layfolk (and others) in your own life. #bog13
332617856271409152 May 9 18:07 @GenomeNathan Greely: Publicize the questions through mainstream media, bolstered by government discussion. #bog13
332618035691126785 May 9 18:08 @mwilsonsayres @ngsgene @notSoJunkDNA also, really wishing I were at #bog13, so we could continue in more than 140 characters :-/
332620800697974784 May 9 18:19 @K_dele RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332622104526729217 May 9 18:24 @charles_ferte RT @notSoJunkDNA: BB: Prenatal testing involves a future adult who may not want to know about genetic information #bog13
332625476252205056 May 9 18:37 @RosselloFJ RT @notSoJunkDNA: JK: discuss briefly the 7 criteria for chromothripsis. Korbel and Campbell, Cell 2013 #Bog13
332636887103705090 May 9 19:23 @leonidkruglyak Evolutionary genomics session about to start at #bog13. Looks like 5/8 tweetable talks.
332637789973794817 May 9 19:26 @danrdanny @leonidkruglyak do you have a question limit this session? #bog13
332637920982888448 May 9 19:27 @anderson_carl #bog13 Taking in this session from the bar, hasn’t started yet but I can already clearly hear @ewanbirney!
332639298857881600 May 9 19:32 @leonidkruglyak In a switch, Kingsley compares species evolution to cancer. #bog13
332639433176252416 May 9 19:33 @yluo86 RT @anderson_carl: #bog13 Taking in this session from the bar, hasn’t started yet but I can already clearly hear @ewanbirney!
332640377146314752 May 9 19:37 @GenomeNathan Stickleback > Nickelback, in so many ways. #bog13
332640797524635649 May 9 19:38 @klmr RT @GenomeNathan: Stickleback > Nickelback, in so many ways. #bog13
332641403840655360 May 9 19:41 @GenomeNathan Kingsley: Sea- vs. freshwater difference in stickleback armor scales trace largely to divergence in secreted b.m.p.-encoding GDF6. #bog13
332641562842513408 May 9 19:41 @ewanbirney David Kingsley sorts out a regulatory locus on armour plating in stickleback plates noted in 1829 #bog13
332641789058113536 May 9 19:42 @anderson_carl Kingsley identified gene for number and size of armoured plates in sticklebacks. Cool stuff. #bog13
332642200104103936 May 9 19:44 @leonidkruglyak Stickleback genetic basis of adaptation seems remarkably simple. Small number of large-effect mutations. #bog13
332642249672368129 May 9 19:44 @ewanbirney Stickleback genetics is great ... close to my favourite fish, medaka ( everyone should have a favourite fish...) #bog13
332643183223783425 May 9 19:48 @obahcall RT @erlichya: @obahcall this is for you! Hummus world... #bog13 http://t.co/BEXez4dgth
332643569867309056 May 9 19:49 @GenomeNathan Kingsley: GDF6 matters in us too; we lost ancestral ape reg. segment that (per mouse data...) may have helped shape fore/hindlimbs. #bog13
332643705058111488 May 9 19:50 @ctitusbrown RT @leonidkruglyak: Stickleback genetic basis of adaptation seems remarkably simple. Small number of large-effect mutations. #bog13
332643784707952640 May 9 19:50 @tuuliel Kingsley: Digit shortening in human feet by deletion of a regulatory element. Yay or nay? Proof of causality doesn't seem that strong #bog13
332644139319570432 May 9 19:51 @QTFocus RT @leonidkruglyak: In a switch, Kingsley compares species evolution to cancer. #bog13
332644147913715712 May 9 19:51 @leonidkruglyak Wondering if rapid evolution under strong selection is a special case. #bog13
332644164103704576 May 9 19:52 @ewanbirney Interesting - gfp6 adaption in stickleback probably due to a transposon creating a new enhancer, selected in freshwater fish. #bog13
332644411676696577 May 9 19:53 @JavierHerrero7 DG identifies a non-coding mutation that controls the expression of GDF6. In human, controls skull bone growth #bog13
332644452751519745 May 9 19:53 @scottjcain @ewanbirney so what did you want to ask? #bog13
332644647090417664 May 9 19:53 @ewanbirney @leonidkruglyak I was wondering the same thing ( also perhaps true for marine to fresh) -- the third part of my question #bog13
332645076993970176 May 9 19:55 @ewanbirney @scottjcain the second part was the ratio of deletions to gains in the stickleback screen. #bog13
332645226818723840 May 9 19:56 @evolvability @leonidkruglyak how about dogs? #bog13
332645400156717057 May 9 19:56 @tuuliel Julien Ayroles on the role of epistasis in evolution. A topic of personal interest: http://www.ncbi.nlm.nih.gov/pubmed/21907014 #bog13
332645440862445568 May 9 19:57 @sphel70 @leonidkruglyak i wonder if lg effects are more easily detected, or if genetics of standng vartn diff from genetics of adaptation. #bog13
332645553613729792 May 9 19:57 @ewanbirney Ayroles using a 50 generation recombinant inbred lines in flies. Love RI lines coming back (see Rats and Mice ...) #bog13
332646560766767104 May 9 20:01 @ewanbirney Using it to look at epistasis ... First up, just looking at distortion of alleles in this RI set. #bog13
332648008682442754 May 9 20:07 @ewanbirney @leonidkruglyak it's rare, but the specific cross looked convincing. Is it that surprising? Not sure myself. What do we expect? #bog13
332648827901313025 May 9 20:10 @ewanbirney @leonidkruglyak I wondered about that as well. These are artificial populations by design. But... Interesting I think. #bog13
332649139915603969 May 9 20:11 @ewanbirney @leonidkruglyak I wonder what the link between the cyp and the other gene is? #bog13
332650089434730496 May 9 20:15 @ewanbirney Batchtrog on sex chromosome evolution. I always find it amazing how many different times hetreogametic sex evolves and ... 1/2 #bog13
332650201527504897 May 9 20:16 @casey6r0wn Finally some comic sans. #bog13
332650217038028801 May 9 20:16 @probablechemist 1 Q per person, laughter on rhs of Grace from an off-mike comment: 'I'm not famous enough yet [to follow up my Q]' #bog13
332650261292134400 May 9 20:16 @GenomeNathan Bachtrog: Do transposons often rewire regulatory networks? Survey dosage comp. of newly X-borne (erstwhile autosomal) fruitfly genes. #bog13
332650284914454528 May 9 20:16 @genetisaur DB: functionally verified chromatin entry sites in neo sex chromosome in drosophila Miranda #bog13
332650346381967360 May 9 20:16 @ewanbirney ... How different the dosage compensation scheme it is. drosophila Miranda comes in with a recent new X chromosome #bog13
332650686862983168 May 9 20:17 @ewanbirney Does anyone know how meiosis works in d. Miranda? Is it like p,a typhus with the funky lining up of the sex chromosomes? #bog13
332650952387612672 May 9 20:19 @larry_parnell It would be nice to hear some ideas of why this new D miranda X chromosome arose. What were the signals from the environment? #bog13
332651026953953280 May 9 20:19 @ewanbirney Transposons dropping in transcription factors also true for CTCF shown by the odom and @PaulFlicek groups. #bog13
332651557030084609 May 9 20:21 @ewanbirney Nice "isx is a domesticated transposon ". And a very eroded transposon on an older X. Cool. #bog13
332651711132995585 May 9 20:22 @danjgaffney RT @casey6r0wn: Finally some comic sans. #bog13
332652401888735232 May 9 20:24 @denizkural RT @aaronquinlan: Check out Ryan Layer's poster no. 185 on LUMPY, our probabilistic SV discovery tool. #bog13 http://quinlanlab.org/software.html
332652453705154560 May 9 20:25 @denizkural RT @GholsonLyon: Cool, the HTML and PDF version of our recent paper on variant calling went live, just ahead of #BOG13. :) http://t.co/0G34wOMo9c
332652793238257664 May 9 20:26 @scottjcain Bachtrog notes that she must be talking fast; audience laughs: we already knew that. #bog13
332653399336185856 May 9 20:28 @ewanbirney That was a great talk on transposon mediated sex chromosome evolution. #bog13
332653527237275648 May 9 20:29 @Ubercoat I love how, when a second question is asked, everyone immediately looks at Carlos to see if it has incurred his wrath #bog13
332653815817965569 May 9 20:30 @scottjcain Is #bog13 becoming like a Sunday morning political tv show? Follow up questions not allowed.
332653894859632640 May 9 20:30 @Magda_Skipper RT @Ubercoat: I love how, when a second question is asked, everyone immediately looks at Carlos to see if it has incurred his wrath #bog13
332654015965966337 May 9 20:31 @Magda_Skipper RT @scottjcain: Is #bog13 becoming like a Sunday morning political tv show? Follow up questions not allowed.
332654334514958336 May 9 20:32 @leonidkruglyak Much merriment and confusion on trying to enforce "no follow-up questions" #bog13
332654418166153216 May 9 20:32 @casey6r0wn Team non-coding FTW! #bog13
332654442497314816 May 9 20:32 @tuuliel Did your twitter just crash for a minute? #bog13
332654576224333824 May 9 20:33 @leonidkruglyak "I don't know if you work with sea urchins. I do. They're dumb." #bog13
332654670864605184 May 9 20:33 @scottjcain Turns out, sea urchins are dumb. #bog13
332654777836138496 May 9 20:34 @leonidkruglyak Previous quote from Garfield, re apparent enrichment of neuronal genes in sea urchin evolution. #bog13
332654913328906242 May 9 20:34 @obahcall David Garfield contrasting contributions of coding, noncoding changes to evolution across phyla #bog13
332654983990374402 May 9 20:35 @tuuliel David Garfield on non/coding variation in evolution. Enrichment of cognitive evolution in sea urchin. To be honest, I'm not surprised #bog13
332655006689943552 May 9 20:35 @ewanbirney David Garfield from Eileen furlongs lab talking about coding vs non coding evolution in urchins. He reminds us urchins are dumb #bog13
332655289427968001 May 9 20:36 @klmr RT @leonidkruglyak: "I don't know if you work with sea urchins. I do. They're dumb." #bog13
332655932666413057 May 9 20:38 @GenomeNathan Garfield: Non-coding adaptation may drive nerve development evolution in many critters, not just us. #bog13
332656028418207744 May 9 20:39 @GenomeNathan Garfield: Ditto coding adaptation in immunity, other cell surface functionality. #bog13
332656640983703552 May 9 20:41 @tuuliel Ubiquitously expressed genes under stronger selective constraint. Done this analysis for human variation, it applies there too. #bog13
332656652010528768 May 9 20:41 @naubinhorth RT @leonidkruglyak: Stickleback genetic basis of adaptation seems remarkably simple. Small number of large-effect mutations. #bog13
332656766775066625 May 9 20:42 @jp_mcginnis RT @leonidkruglyak: "I don't know if you work with sea urchins. I do. They're dumb." #bog13
332656973025800193 May 9 20:42 @larry_parnell DG sees positive selection in muscle regulatory architecture. Is this adaptation to diet/energy sources? #bog13
332657185953832960 May 9 20:43 @leonidkruglyak Garfield: "if you lose your brain you're dead. If you lose your immune system you're dead. They're both important." #bog13
332657232376377344 May 9 20:43 @tuuliel Great talk by Garfield! Tissue-specific targets of selection probably v important, been thinking along these lines for a long time...#bog13
332657675945000961 May 9 20:45 @obahcall Glad Garfield concludes that whether coding/non more important in evolution is wrong one to ask–they affect diff essential processes #bog13
332657800306102272 May 9 20:46 @FurnoX RT @ewanbirney: Biology is wonderfully... novel. Circular RNAs - I would not have predicted this. Lots of questions triggered by this #bog13
332657972742332416 May 9 20:46 @larry_parnell Indeed @obahcall That is an important point #bog13
332658178900783104 May 9 20:47 @markgerstein Garfield: Good Q on whether functional classifications apply differentially to promotors and enhancers #bog13
332660835539361792 May 9 20:58 @gokcumen RT @markgerstein: Garfield: Good Q on whether functional classifications apply differentially to promotors and enhancers #bog13
332661565713154049 May 9 21:01 @harpersnotes RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332661577817915393 May 9 21:01 @ssatta RT @GenomeNathan: Stickleback > Nickelback, in so many ways. #bog13
332664070920613888 May 9 21:11 @girlscientist First up: Hopi Hoekstra, just named HHMI investigator and lovely person. Talking on sexually selected trait in deer mice. #bog13
332664376798638080 May 9 21:12 @ewanbirney Hopi hoeketra on a sexually selected traits on deer mice. Which look very cute. #bog13
332664518293463043 May 9 21:12 @girlscientist The room laughs when Hoekstra points out that many previous studies relied on assumption that females only mate with one male. #bog13
332664660635549696 May 9 21:13 @konrad_jk Hopi Hoekstra: Darwin, being a proper Victorian Brit, assumed that females only mated with a single male #bog13
332664662099378176 May 9 21:13 @tuuliel Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332664800523997184 May 9 21:14 @girlscientist The reality: sperm competition happens often and "is intense," says Hoekstra. #bog13
332664971945197568 May 9 21:14 @leonidkruglyak Much of this talk is off-color. #bog13
332665018556481536 May 9 21:14 @klmr RT @konrad_jk: Hopi Hoekstra: Darwin, being a proper Victorian Brit, assumed that females only mated with a single male #bog13
332665079050952705 May 9 21:15 @girlscientist See Hoekstra lab Science paper from March 2013 for background on deer mice system she studies: http://www.ncbi.nlm.nih.gov/pubmed/23493712 #bog13
332665366893441025 May 9 21:16 @GenomeNathan RT @tuuliel: Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332665434165882880 May 9 21:16 @obahcall Hopi Hoekstra on sexually selected traits in deer mice, with few comments on comparability to human mating patterns #bog13
332665793391247364 May 9 21:18 @ewanbirney RT @tuuliel: Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332665865097076737 May 9 21:18 @kayellbe Indeed, @girlscientist, Hoekstra wins today's award for cleverest choice of model system. #bog13
332665931060883456 May 9 21:18 @anderson_carl Hoekstra speaking about evolutionary sperm wars in promiscuous deer mice. #bog13
332665966532100096 May 9 21:18 @razibkhan RT @obahcall: Hopi Hoekstra on sexually selected traits in deer mice, with few comments on comparability to human mating patterns #bog13
332665996831768576 May 9 21:18 @dgmacarthur Hopi Hoekstra is giving an awesome talk about sperm competition, but promiscuously producing truncated Y axes. :-( #bog13
332666011247575041 May 9 21:18 @razibkhan RT @tuuliel: Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332666239363198976 May 9 21:19 @konrad_jk This is a great talk to be in the bar for. HH comparing sperm swimming speed. Polygamous species have faster and more forceful sperm. #bog13
332666244400553986 May 9 21:19 @kayellbe Flagging this technique paper for post-talk reading: http://www.plosone.org/article/info:doi/10.1371/journal.pone.0037135 #bog13
332666251950321664 May 9 21:19 @dysruption what? a PI talking about new and unpublished? and its tweetable? #cshl #hopihoekstra #bog13
332666381688508417 May 9 21:20 @Ubercoat RT @dgmacarthur: Hopi Hoekstra is giving an awesome talk about sperm competition, but promiscuously producing truncated Y axes. :-( #bog13
332666416899698688 May 9 21:20 @razibkhan RT @dgmacarthur: Hopi Hoekstra is giving an awesome talk about sperm competition, but promiscuously producing truncated Y axes. :-( #bog13
332666420158660609 May 9 21:20 @David_Dobbs RT @dgmacarthur: Hopi Hoekstra is giving an awesome talk about sperm competition, but promiscuously producing truncated Y axes. :-( #bog13
332666512651481088 May 9 21:20 @Ubercoat @dgmacarthur I'm glad I wasn't the only one bugged by that. #bog13
332666528845660160 May 9 21:20 @David_Dobbs RT @tuuliel: Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332666543982907395 May 9 21:20 @girlscientist Room of human geneticists drooling over the LOD scores Hoekstra is able to produce from mouse system. #bog13
332666699608387585 May 9 21:21 @dgmacarthur Serious case of LOD score envy from the human geneticists in the audience - axis goes up to 25. #bog13
332666789500710912 May 9 21:21 @ewanbirney Qtl mapping of sperm traits in deer mouse. Perfect association to a 1cm region 5 genes... They have a good candidate #bog13
332666891430670336 May 9 21:22 @GenomeNathan Size matters: Hoekstra finds much longer sperm tails/midpieces in polygamous than monogamous deer mice. Homing in on candidate gene. #bog13
332666952017379328 May 9 21:22 @GenomeNathan RT @dgmacarthur: Serious case of LOD score envy from the human geneticists in the audience - axis goes up to 25. #bog13
332666970338099200 May 9 21:22 @kayellbe RT @dgmacarthur: Serious case of LOD score envy from the human geneticists in the audience - axis goes up to 25. #bog13
332667021319892992 May 9 21:22 @pop_gen_JED Did Hoekstra mention heritability of tail length? #bog13
332667454784417792 May 9 21:24 @BryChav RT @dgmacarthur: Hopi Hoekstra is giving an awesome talk about sperm competition, but promiscuously producing truncated Y axes. :-( #bog13
332667631016476672 May 9 21:25 @leonidkruglyak .@dgmacarthur just wait till tomorrow--LOD scale goes to 200 in yeast. #bog13
332668024773545985 May 9 21:26 @genetisaur "Rabble rabble rabble" says the bar. Small differences? Maybe #bog13
332668038069506048 May 9 21:26 @leonidkruglyak Subtle expression differences for a candidate gene seems short of proof of causality. #bog13
332668060580315138 May 9 21:27 @jcbarret @leonidkruglyak @dgmacarthur This one goes to eleven. #bog13
332668445416116226 May 9 21:28 @leonidkruglyak And there goes the wifi. #bog13
332668553343946752 May 9 21:28 @pop_gen_JED My question for Hoekstra: What are heritabilities of tail length and mid piece? #bog13
332668659220766720 May 9 21:29 @dysruption "...promiscuity is the ancestral form"- Hopi hoekstra #bog13
332668671795273729 May 9 21:29 @timspector #bog13 Q from the bar- does beer affect expression of motility in sperm?
332668846823583745 May 9 21:30 @obahcall HH providing nice eg of drawing connections between genotype, phenotype and fitness, for sperm traits in deer mice #bog13
332668932655833089 May 9 21:30 @leonidkruglyak Of course there is a mouse ENCODE project. #bog13
332668961692995585 May 9 21:30 @genomeresearch MT @genomenathan:Hoekstra finds longer sperm tails/midpieces in polygamous than monogamous deer mice. Homing in on candidate gene. #bog13
332669147911712769 May 9 21:31 @genomeresearch RT @leonidkruglyak: Of course there is a mouse ENCODE project. #bog13
332669281856786434 May 9 21:31 @coalescent RT @tuuliel: Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332669667862781952 May 9 21:33 @nextgenseek RT @dgmacarthur: Serious case of LOD score envy from the human geneticists in the audience - axis goes up to 25. #bog13
332669925258825729 May 9 21:34 @obahcall Bing Ren reminding us why mouse has been such a favorite model system, and community need for Mouse ENCODE #bog13
332670304159662080 May 9 21:35 @ayannamonte RT @tuuliel: Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332670458442952704 May 9 21:36 @matthewherper RT @obahcall: Hopi Hoekstra on sexually selected traits in deer mice, with few comments on comparability to human mating patterns #bog13
332671069406248960 May 9 21:38 @kayellbe Ren provides us with our acronym of the hour - NACC, or "Neighborhood Analysis of Conserved Co-expression" #bog13
332671379671511040 May 9 21:40 @pop_gen_JED Bing Ren: high conservation between regulation programming between species. #bog13
332671522416246784 May 9 21:40 @petrzzz RT @dysruption: "...promiscuity is the ancestral form"- Hopi hoekstra #bog13
332671596198260737 May 9 21:41 @larry_parnell To channel @Emeril If you're in same #bog13 session as Hoekstra and Pääbo you gotta kick it up a notch
332671835302944770 May 9 21:42 @pop_gen_JED Bing Ren: 20% of prometers in mouse do not have an ortholog in human. #bog13
332671923735633921 May 9 21:42 @00livier Bing Ren: 25% of mouse promoter sequence lack homology to human. #bog13
332672093911150592 May 9 21:43 @obahcall Ren: large degree conservation in transcriptional programs in human and mouse; comparing cellular processes showing more/less #bog13
332672104011005952 May 9 21:43 @larry_parnell Not surprising to many in nutrition that lack of mouse-human conservation at enhancers found at lipid metab genes #bog13
332672123355152384 May 9 21:43 @Magda_Skipper Ren: many mouse regulatory sequences are not conserved in human, maybe because they are LTR rich #bog13
332672162244730881 May 9 21:43 @juansearch #bog13 12% of the mouse genome consists of enhancer elements (Bing Ren). How do we figure out the function of the >80% still unknown?
332672588771885057 May 9 21:45 @Magda_Skipper Ren: replication domain boundaries are conserved between mouse and human; also between some cell types #bog13
332672654156902400 May 9 21:45 @00livier BR : boundaries of replication domains are conserved between mouse and human #bog13
332672672020455425 May 9 21:45 @girlscientist @David_Dobbs @matthewherper @dgmacarthur It's the annual Cold Spring Harbor meeting called The Biology of Genomes. Nerd nirvana. #bog13
332673317356048386 May 9 21:47 @gmopundit RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332673568318033925 May 9 21:48 @larry_parnell Indeed a good ? to Ren about mapping conserved or not TSSs btwn mouse & human #bog13 They can do it and hopefully will
332673729429639168 May 9 21:49 @obahcall Peter Sudmant going great apes to study evolution and diversity of copy number variation #bog13
332674068295872512 May 9 21:50 @leonidkruglyak I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332674084217430019 May 9 21:50 @ctitusbrown RT @leonidkruglyak: "I don't know if you work with sea urchins. I do. They're dumb." #bog13
332674089120567297 May 9 21:50 @markgerstein Ren: in looking at conservation of transcriptional programs between human & mouse, great differences amongst functional categories #bog13
332674247975632896 May 9 21:51 @TheAtavism RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332674381585195008 May 9 21:52 @Magda_Skipper RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332674575118766082 May 9 21:52 @GenomeNathan @leonidkruglyak Amen. How about someone more like a modal person (female, for starters...and likely southern/eastern Asian)? #bog13
332674629267243008 May 9 21:53 @Theironlobster RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332674991009181699 May 9 21:54 @GenomeNathan Sudmant presents awesome data on sequence diversity in great apes. 83 non-humans yielded more allelisms than 1000(+92) people. #bog13
332675116767014912 May 9 21:55 @David_Dobbs Seconded “@leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13”
332675331347578881 May 9 21:55 @GenomeNathan Sudmant roams from heterozygosity (varies 3-fold in great apes) to ancestral demography to long indel rates. #bog13
332675696273006593 May 9 21:57 @GenomeNathan Sudmant infers burst of deletion in Pan lineage, perhaps during ancestral population crash. #bog13
332675970932809730 May 9 21:58 @larry_parnell @Magda_Skipper @leonidkruglyak I've seen a few trees using a human persona non grata #bog13 Or perhaps try Carl Linnaeus?
332675980718141440 May 9 21:58 @GenomeNathan Sudmant finds -nearly- fixed (save 1 Brit) modern human-specific BOLA2 duplication. #bog13
332675984249729026 May 9 21:58 @spreadscienced RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332676071541575682 May 9 21:58 @kayellbe Agreed, @leonidkruglyak, but calling apes our ancestors was the more egregious error of the phylogeny slide. #bog13
332676100457111554 May 9 21:58 @leonidkruglyak Svante Paabo anchoring the late-night session at #bog13. Alas, not tweetable.
332676395727724544 May 9 22:00 @matthewherper Sudnent: way more deletions in Western chimps than otger apes. #bog13
332676405466906624 May 9 22:00 @davetang31 RT @pop_gen_JED: Bing Ren: 20% of prometers in mouse do not have an ortholog in human. #bog13
332676552355635200 May 9 22:00 @girlscientist Peter Sudmant: showed deletion in one chimp which in humans would cause Smith-Magenis syndrome. She had similar phenotypes to humans. #bog13
332676598149050369 May 9 22:00 @Magda_Skipper @larry_parnell @leonidkruglyak Linnaeus would be a great idea! How many would recognise him though #bog13
332676940228091904 May 9 22:02 @matthewherper One chimp had gene that matched a human genetic disorder. Now first chimp genetic disorder. #bog13
332677003692089346 May 9 22:02 @leonidkruglyak About 100 people on this acknowledgment slide. #bog13
332677396996182016 May 9 22:04 @markgerstein Sudmant: interesting observation that there are many more duplications in some ape lineages than in recent human history (~5% of 3gb) #bog13
332677467263361025 May 9 22:04 @obahcall On the Eichler lab acknowledgment slide, who was the lady in headstand? #bog13
332677500436103169 May 9 22:04 @prometheusgreen RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332677533994717184 May 9 22:04 @denizkural RT @kayellbe: Agreed, @leonidkruglyak, but calling apes our ancestors was the more egregious error of the phylogeny slide. #bog13
332678749634056193 May 9 22:09 @notSoJunkDNA @leonidkruglyak as if anybody can scoop Paabo on the Neanderthal genome! That's too bad, since I am not at #bog13 tonight
332681532089180160 May 9 22:20 @bendesky RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332681823165493248 May 9 22:21 @leonidkruglyak In Q&A, @ewanbirney tempts speaker to speculate wildly. #bog13
332683442653388800 May 9 22:28 @genomeresearch RT @obahcall: Bing Ren reminding us why mouse has been such a favorite model system, and community need for Mouse ENCODE #bog13
332684157710913536 May 9 22:30 @GuyHorev very nice to see #bog13 lecture at home with meetstream.
332685578250366976 May 9 22:36 @obahcall Great summary Sophia K's talk last night, single cell analysis of a pediatric brain tumor #bog13 @ciarzc @DailyScan http://bit.ly/15Rkv7x
332691284550619136 May 9 22:59 @Sa3vis RT @matthewherper: One chimp had gene that matched a human genetic disorder. Now first chimp genetic disorder. #bog13
332701485949390848 May 9 23:39 @arvidagren @ewanbirney Who was the talk by? Thanks for tweeting #bog13!
332710072453038080 May 10 00:13 @stuffysour RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332721010157686784 May 10 00:57 @lucventurini RT @tuuliel: Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332726445942128640 May 10 01:19 @VeronikaMeduna RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332731904166072320 May 10 01:40 @adzebill RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332739127395119104 May 10 02:09 @richardbadge VVI! RT @ewanbirney Interesting - gfp6 adaption in stickleback probably due to a transposon creating a new enhancer, selected .... #bog13
332747869297709057 May 10 02:44 @sharmanedit RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332761295474532354 May 10 03:37 @renelaennec RT @notSoJunkDNA: . @GenomeNathan The movies are posted here: http://archive.gersteinlab.org/mark/out/log/2013/05.03/talk/multi-gif-movies/ #bog13
332762044359114753 May 10 03:40 @lexnederbragt RT @ewanbirney: Stickleback genetics is great ... close to my favourite fish, medaka ( everyone should have a favourite fish...) #bog13
332764003728236545 May 10 03:48 @renelaennec RT @notSoJunkDNA: JK: discuss briefly the 7 criteria for chromothripsis. Korbel and Campbell, Cell 2013 #Bog13
332782987475312642 May 10 05:03 @4a6a5a The section of the #twittersphere I am following seems to have #bog13 burnout. :)
332785582013038592 May 10 05:14 @Bobmorevc RT @tuuliel: Hopi Hoekstra: "Darwin made the assumption that females mate only with a single male. He was obviously wrong." #bog13
332785903527403521 May 10 05:15 @genomematt A wave and thanks to all the #bog13 tweeps (& tweet enabling speakers) from the geographically challenged
332795009294278656 May 10 05:51 @OmicsOmicsBlog RT @dgmacarthur: Serious case of LOD score envy from the human geneticists in the audience - axis goes up to 25. #bog13
332795024200830976 May 10 05:51 @OmicsOmicsBlog RT @leonidkruglyak: .@dgmacarthur just wait till tomorrow--LOD scale goes to 200 in yeast. #bog13
332797571913363456 May 10 06:01 @SeqComplete buzz- The Biology of Genomes #bog13 is out! http://paper.li/SeqComplete/1363021264 ▸ Top stories today via @tuuliel @obahcall @kayellbe
332809586136449024 May 10 06:49 @landrychristian RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332817763775176704 May 10 07:21 @GenomeBiology RT "@leonidkruglyak Of course there is a mouse ENCODE project. #bog13" >>> read more about it in our Open Letter http://bit.ly/MZXRLG
332820760185937921 May 10 07:33 @drbachinsky RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332823205586808834 May 10 07:43 @drbachinsky RT @GenomeBiology: RT "@leonidkruglyak Of course there is a mouse ENCODE project. #bog13" >>> read more about it in our Open Letter http://t.co/IpYltmHSni
332828353881063424 May 10 08:03 @zhihaoding RT @notSoJunkDNA: Andrew Brown "I am not sure I understood your question but I am sure I should" #bog13
332830690582347776 May 10 08:13 @ileniazara RT @JavierHerrero7: JM presents the new Sanger-EBI single-cell center http://po.st/VReV6O #bog13
332831045462405120 May 10 08:14 @ileniazara RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
332833269034913793 May 10 08:23 @bffo Deanna, is this at #bog13? RT @deannachurch: #ICCG2013 morning session is starting with Andy Faucett talking about the development of pat...
332833619305439235 May 10 08:24 @ileniazara RT @notSoJunkDNA: Andrew Brown "I am not sure I understood your question but I am sure I should" #bog13
332833899057135616 May 10 08:26 @notSoJunkDNA Just bought the book and got it signed by @konrad_jk. Now I need to find @jdudley #bog13 http://t.co/dLEEmM79hN
332834613732966402 May 10 08:28 @evolvability RT @notSoJunkDNA: Just bought the book and got it signed by @konrad_jk. Now I need to find @jdudley #bog13 http://t.co/dLEEmM79hN
332838501685018626 May 10 08:44 @ldemare RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332850087124430849 May 10 09:30 @GenomeBiology Cute: how hotspotty are dogs! Auton on recombination in dogs. #bog13
332850188865638403 May 10 09:30 @Magda_Skipper AA: dog recombination hotspots much smaller in magnitude than in humans and chimps #bog13
332850203839328257 May 10 09:30 @giessel it's happening- gotta get em all RT @spreadscienced: Molly Przeworski (HHMI) 500 Eukaryotic genomes have been sequenced to date. #BoG13
332850268138000384 May 10 09:31 @jcbarret I always think these % recomb vs % genome plots should have the axes reversed...#bog13
332850567267360768 May 10 09:32 @anderson_carl AA: prdm9 is a pseudogene in dogs and dogs are less ‘hotspotty’ than humans. GC rich repeats have high recomb rate. #bog13
332850734267781122 May 10 09:32 @spreadsciencED AA (HHMI) Recombination in dogs. How hotspotty are dogs? #BoG13
332850882788089857 May 10 09:33 @larry_parnell AA sees recomb hotspots at start site of transcription in dogs; this is not seen in human #bog13
332851073536626688 May 10 09:34 @larry_parnell AA sees recomb hotspots at CpG islands near start site of transcription in dogs; this is not seen in human #bog13
332851212699451394 May 10 09:34 @Magda_Skipper AA: hotspots in dogs track with CpG islands cf PRDM9 KO mice story Brick et al Nature 2012 #bog13
332851402500079616 May 10 09:35 @shramdas RT @notSoJunkDNA: Adam Auton (@EinsteinMed) : Genetic recombination is targeted towards gene promoter regions in dogs #bog13
332851533207179264 May 10 09:36 @obahcall AA shows recombination peak around transcription start sites in dogs, compared to nearly flat in humans #bog13
332851553608286208 May 10 09:36 @spreadsciencED AA: Are dogs using H3K4me3 marks for recombination? AA looks like "CpG islands is whats driving the recombination not, H3K4 mark" #BoG13
332851559673249792 May 10 09:36 @bioinfosm http://en.wikipedia.org/wiki/List_of_sequenced_eukaryotic_genomes might add up! RT @spreadscienced Molly Przeworski (HHMI) 500 Eukaryotic #genomes have been #sequenced to date. #BoG13
332851800371761152 May 10 09:37 @larry_parnell Next talk by Tischler on primate genome architecture linked with formation mechs & functional conseqs of structural variation #bog13 NoTweet
332852055930703873 May 10 09:38 @GenomeNathan RT @obahcall: AA shows recombination peak around transcription start sites in dogs, compared to nearly flat in humans #bog13
332852301528182784 May 10 09:39 @casey6r0wn RT @ewanbirney: @dgmacarthur yup. Think about the assembly headache in that one. Arend Sidow still has scars ... #bog13
332852409837682690 May 10 09:39 @spreadsciencED Tischler: Primate genome architecture linked w/ formation mechanisms & functional consequences of structural variation #BoG13
332852553731682306 May 10 09:40 @elhong @adamauton Has anyone studied Spo11 localization in dogs? Does Spo11 binding sites overlap with trimethylation marks? #bog13
332852874533027840 May 10 09:41 @spreadsciencED Tischler:? At what evolutionary timescales do SV formation mechanisms differ? #BoG13
332853181719650307 May 10 09:42 @spreadsciencED Tischler: Recent sequencing-based studies in selected primate species did not address ?'s related to differences in SV formation #BoG13
332853275600748544 May 10 09:42 @notSoJunkDNA RT @elhong: @adamauton Has anyone studied Spo11 localization in dogs? Does Spo11 binding sites overlap with trimethylation marks? #bog13
332853909876006913 May 10 09:45 @EpgntxEinstein Following presentation by my colleague @adamauton at #bog13 #doggyballs
332853923423596546 May 10 09:45 @spreadsciencED Tischler: DNA/RNA-seq on Chimps, Orang-utan, and Rhesus Macaque #BoG13
332853952368484352 May 10 09:45 @gknoProject RT @GenomeNathan: If mutation, selection, demography, and recombination ever walk into a bar, Przeworski will be tending. #bog13
332854129099689986 May 10 09:46 @spreadsciencED Tischler: Great ape SVs closely resemble human data (Mills et al 2012) #BoG13
332854237719560192 May 10 09:46 @larry_parnell Readable in the back? Hardly ever legible with the @cshlmeetings live feed! #bog13 Need higher res in the feed
332856100007325696 May 10 09:54 @GenomeBiology And for more about recombination in dogs, see our recent paper on novel origins of CNVs in the dog genome http://bit.ly/PeN81L #bog13
332856256689733634 May 10 09:54 @genomeresearch @ewanbirney @joe_pickrell @adamauton Swedish wolves also have frameshift muts in PRDM9 http://tinyurl.com/c8pfjvh #bog13
332856814809001984 May 10 09:57 @notSoJunkDNA Steven Salzberg: The sequencing, assembly, and characterization of a 24Gb (!!!) conifer genome (P. taeda) #bog13
332857005515632640 May 10 09:57 @GenomeBiology SS on his loblolly pine genome project. Nice to have some plant focus here. #bog13
332857031549657088 May 10 09:57 @Magda_Skipper Salzberg on the pine genome, yes, there are all these plants out there to be characterised... #bog13
332857101573562368 May 10 09:58 @luke__ward RT @notSoJunkDNA: AA PRDM9 is completely dysfunctional in dogs! #bog13
332857119097364481 May 10 09:58 @ewanbirney @StevenSalzberg1 up on the #bog13 on the truly huge pine genome ~ 20 gb!
332857147257929728 May 10 09:58 @matthewherper . @StevenSalzberg1 talking about sequencing pine trees, which have genomes 8 times bigger than a human one. #bog13
332857243412332546 May 10 09:58 @matthewherper . @StevenSalzberg1 of major evolutionary but also economic importance. This pine tree is used to make paper. #bog13
332857345497497601 May 10 09:59 @leonidkruglyak Salzberg talking about sequencing the 22 GIGABASE pine tree genome. #bog13
332857357665177602 May 10 09:59 @spreadsciencED Steven Salzberg: The sequencing, assembly, and characterization of a 24Gb conifer genome (P. taeda) #BoG13
332857491253755904 May 10 09:59 @matthewherper . @StevenSalzberg1 even though pines are very familar to use, their reference genomes are not. Doing three. #bog13
332857696854368256 May 10 10:00 @obahcall Steven Salzberg on sequencing, assembly of a conifer genome (pine tree), at 22Gb, a truly large genome #bog13
332857707335933952 May 10 10:00 @ewanbirney 3 conifer genomes. Loblolly pine first up. Get ready for assembly geek out moment #bog13
332857779616350208 May 10 10:00 @GenomeNathan Salzberg: Loblolly pine has 12 chromosomes -- each roughly 2/3 as big as a whole human genome! (Body height proportional to G?...) #bog13
332857916895948800 May 10 10:01 @spreadsciencED Steven Salzberg: Pinus Taeda -Gigantic genome. What's is it? Nobody knows as of yet? #BoG13
332857979772755968 May 10 10:01 @matthewherper . @StevenSalzberg1 we'd prefer DNA to be haploid -- pine nuts have haploid DNA. You can get enough from one pine nut. #bog13
332857983107215360 May 10 10:01 @leonidkruglyak SS: Why are these genomes so big? What's in them? Not really going to be able to really answer that yet. #bog13
332858139936432130 May 10 10:02 @matthewherper . @StevenSalzberg1 needles you can get unlimited diploid DNA; haploid dan from pine nuts, which differ from one another. #bog13
332858147444228097 May 10 10:02 @leonidkruglyak Cool: sequencing haploid pinenuts! #bog13
332858160765349891 May 10 10:02 @GenomeNathan Salzberg: Every pine nut on a tree has a unique haploid genome. #bog13
332858196169461760 May 10 10:02 @ewanbirney Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
332858310929813504 May 10 10:03 @PaulFlicek Pine nuts have enough haploid DNA to sequence the whole genome. And they are tasty #bog13
332858364721786881 May 10 10:03 @GenomeBiology SS: pine nuts are haploid. but every nut is different due to recombination. #bog13
332858561816326145 May 10 10:04 @spreadsciencED Steven Salzberg: Pine nuts have haploid DNA! ...so cool! who knew? #BoG13
332858839558914048 May 10 10:05 @nextgenseek RT @ewanbirney: Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
332858922547421184 May 10 10:05 @leonidkruglyak One pine nut, 16 billion reads. #bog13
332858985306796032 May 10 10:05 @matthewherper RT @leonidkruglyak: One pine nut, 16 billion reads. #bog13
332859055049682945 May 10 10:05 @matthewherper RT @ewanbirney: Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
332859108027928576 May 10 10:06 @nextgenseek RT @leonidkruglyak: Salzberg talking about sequencing the 22 GIGABASE pine tree genome. #bog13
332859145847963649 May 10 10:06 @nextgenseek RT @matthewherper: . @StevenSalzberg1 talking about sequencing pine trees, which have genomes 8 times bigger than a human one. #bog13
332859159513026560 May 10 10:06 @genomeresearch Careful nut-picking required RT @GenomeNathan: Salzberg: Every pine nut on a tree has a unique haploid genome. #bog13
332859227813060610 May 10 10:06 @leonidkruglyak SS: how do you hold 16 billion reads in memory? #bog13
332859298969436161 May 10 10:06 @gokcumen RT @ewanbirney: Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
332859331399806977 May 10 10:07 @00livier Salzberg: 5000 pine tree FOSMIDs is only 1% of their genome : no overlap when pooled and clean haplotypes #bog13
332859466745782272 May 10 10:07 @ewanbirney 16 billion reads for assembly ... All the programs crashed out of memory (not surprised). Made super reads #bog13
332859669800448000 May 10 10:08 @rkhamsi RT @ewanbirney: Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
332859837044117504 May 10 10:09 @Magda_Skipper Salzberg: compress 16 mln teds into 160 mln super reads for pine genome assembly #bog13
332859852462366721 May 10 10:09 @leonidkruglyak SS: 100X compression with "super reads" #bog13 #superheromics
332860032280588288 May 10 10:09 @juansearch #bog13 Auton: What makes up for the lack of PRDM9 in canids? What other genes are involved in recombination?
332860101973143552 May 10 10:10 @DrBondar VERY cool RT @ewanbirney: Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
332860191945129984 May 10 10:10 @leonidkruglyak Also, several months of assembly time on machine with 1 Tb of RAM #bog13
332860265307709440 May 10 10:10 @ewanbirney 2 months core assembly process. This is an assembly tour de force b @StevenSalzberg1 #bog13
332860325869285376 May 10 10:11 @Magda_Skipper Salzberg: whoops, make that 16 billon reads #bog13
332860367984263168 May 10 10:11 @AmandaDKlinger RT @PaulFlicek: Pine nuts have enough haploid DNA to sequence the whole genome. And they are tasty #bog13
332860533046919168 May 10 10:11 @waspsystem RT @leonidkruglyak: Also, several months of assembly time on machine with 1 Tb of RAM #bog13
332860643092873217 May 10 10:12 @drbachinsky RT @genomeresearch: Careful nut-picking required RT @GenomeNathan: Salzberg: Every pine nut on a tree has a unique haploid genome. #bog13
332860726475640834 May 10 10:12 @leonidkruglyak 64,000 pine genes? Can't confidently say yet. #bog13
332860731362000898 May 10 10:12 @GenomeNathan The 64000 gene question: Salzberg questions his own estimate for pine. #bog13
332860783509782528 May 10 10:12 @spreadsciencED Steven Salzberg: Pinus Taeda 64,000 genes? We don't know (yet)? #BoG13
332860786424836096 May 10 10:12 @matthewherper . @StevenSalzberg1 combining all this data we get about 87,000 complete CDS, 64,000 map to the assembly. Maybe means that many genes? #bog13
332860881111220227 May 10 10:13 @KJClowers A Terabyte of RAM required to assemble pine genome in 2 months #bog13
332860912547540992 May 10 10:13 @leonidkruglyak Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332860959121092610 May 10 10:13 @obahcall RT @leonidkruglyak: Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332860996307787776 May 10 10:13 @susieoftraken RT @ewanbirney: 3 conifer genomes. Loblolly pine first up. Get ready for assembly geek out moment #bog13
332860996953706496 May 10 10:13 @aphillippy RT @leonidkruglyak: Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332861056533807107 May 10 10:13 @susieoftraken RT @ewanbirney: Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
332861066465910784 May 10 10:13 @Magda_Skipper RT @KJClowers: A Terabyte of RAM required to assemble pine genome in 2 months #bog13
332861086032330752 May 10 10:14 @matthewherper Lander asks @StevenSalzberg1 about repeats. "There's a huge number of repeats.#bog13
332861108861943809 May 10 10:14 @VinJLynch RT @GenomeNathan: If mutation, selection, demography, and recombination ever walk into a bar, Przeworski will be tending. #bog13
332861253955506176 May 10 10:14 @GenomeBiology SS: started work on the sugar pine genome. Bigger genome than loblolly - just to raise the assembly stress levels. #bog13
332861471442739200 May 10 10:15 @bryan_howie #YoPineTreesGenomeSoBig...but I digress. #bog13
332861517248729090 May 10 10:15 @lucventurini RT @genomeresearch: Careful nut-picking required RT @GenomeNathan: Salzberg: Every pine nut on a tree has a unique haploid genome. #bog13
332861554041159684 May 10 10:15 @notSoJunkDNA Remember when @leonidkruglyak said last week that he might forget to add a star to his name? #bog13
332861567349686272 May 10 10:15 @leonidkruglyak Eric Lander asks if the 100 Gb field lily genome is next. #bog13
332861844383477763 May 10 10:17 @lucventurini RT @leonidkruglyak: One pine nut, 16 billion reads. #bog13
332862074587840512 May 10 10:17 @leonidkruglyak Will star my talk at break. Tweet away. #bog13 @notSoJunkDNA
332862232390148097 May 10 10:18 @Magda_Skipper Salzberg: pine genome seq available at http://pinegenome.org/pinerefseq site #bog13
332862249297387520 May 10 10:18 @GenomeBiology Salzberg lab alum @mike_schatz wrote a great review (w/ @wrmccombie) on this topic, ie plant assembly http://bit.ly/IwWH7A #bog13
332862464251277313 May 10 10:19 @genomeresearch RT @Magda_Skipper: Salzberg: pine genome seq available at http://pinegenome.org/pinerefseq site #bog13
332862749610754049 May 10 10:20 @leonidkruglyak Pine ENCODE next #bog13 #joke #ihope
332863221818077185 May 10 10:22 @obahcall @leonidkruglyak now starred, tweeting bird awake and chirping through the non-human genomics session #bog13
332863474394865664 May 10 10:23 @klmr RT @bryan_howie: #YoPineTreesGenomeSoBig...but I digress. #bog13
332863501586546690 May 10 10:23 @freekvonk RT @Magda_Skipper: Salzberg: pine genome seq available at http://pinegenome.org/pinerefseq site #bog13
332863887202451457 May 10 10:25 @nextgenseek RT @leonidkruglyak: Pine ENCODE next #bog13 #joke #ihope
332863945708806144 May 10 10:25 @cntalavera RT @Magda_Skipper: Salzberg: pine genome seq available at http://pinegenome.org/pinerefseq site #bog13
332864283287359489 May 10 10:26 @cntalavera RT @GenomeBiology: SS: started work on the sugar pine genome. Bigger genome than loblolly - just to raise the assembly stress levels. #bog13
332864321556201474 May 10 10:26 @Ubercoat Good talks so far. @StevenSalzberg1 had a neat bit about using super-reads (like a local mini assembly) to compress 16 bil. reads #bog13
332864384282013696 May 10 10:27 @cntalavera RT @genomeresearch: Careful nut-picking required RT @GenomeNathan: Salzberg: Every pine nut on a tree has a unique haploid genome. #bog13
332864410752262145 May 10 10:27 @cntalavera RT @GenomeBiology: SS: pine nuts are haploid. but every nut is different due to recombination. #bog13
332864466221924352 May 10 10:27 @cntalavera RT @ewanbirney: 3 conifer genomes. Loblolly pine first up. Get ready for assembly geek out moment #bog13
332864484379074561 May 10 10:27 @cntalavera RT @ewanbirney: @StevenSalzberg1 up on the #bog13 on the truly huge pine genome ~ 20 gb!
332864768589316097 May 10 10:28 @obahcall #bog13 grads/docs:Enjoy broad perspective of the field? Interested in editorial work? Join editors of @NatureRevGenet http://bit.ly/ZpQuUg
332865539313655808 May 10 10:31 @kbradnam Yikes! RT @notSoJunkDNA: Steven Salzberg: The sequencing, assembly, and characterization of a 24Gb (!!!) conifer genome (P. taeda) #bog13
332866297887080451 May 10 10:34 @Ubercoat This is great - there's a photo montage in the lobby of pictures that were taken less than two days ago. #bog13
332866461234237440 May 10 10:35 @Ubercoat It's like that scene in Footloose where they do a flashback to the previous scene #bog13
332866815137038337 May 10 10:36 @FabioLugar RT @GenomeNathan: If mutation, selection, demography, and recombination ever walk into a bar, Przeworski will be tending. #bog13
332867442336473090 May 10 10:39 @juansearch RT @leonidkruglyak: Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332867797283643394 May 10 10:40 @bioinfosm once that is done, 3Gb is nothing! RT @leonidkruglyak Next up, 35 Gb #genome "because we like to torture our assembly people" #bog13
332867948429582336 May 10 10:41 @notSoJunkDNA I just realized that @StevenSalzberg1 looks a lot like the French actor Richard Anconina! https://www.google.com/search?q=richard+anconina&client=safari&hl=en&source=lnms&tbm=isch&sa=X&ei=nAaNUZIg6rXRAbyDgbAM&ved=0CAgQ_AUoAQ&biw=320&bih=416 #bog13
332868220090462209 May 10 10:42 @homolog_us RT @leonidkruglyak: Pine ENCODE next #bog13 #joke #ihope
332868640565260288 May 10 10:44 @GenomeNathan Nordborg: You may like thalecress b/c it's green/springy. We like it b/c it breeds w/itself. And grows well in shotgun-free Sweden. #bog13
332868664254668800 May 10 10:44 @matthewherper RT @Ubercoat: This is great - there's a photo montage in the lobby of pictures that were taken less than two days ago. #bog13
332868676820819968 May 10 10:44 @Magda_Skipper Nordborg: Sweden a good place for fieldwork - small chance of anyone coming out at you with a shotgun #bog13
332868677168926720 May 10 10:44 @matthewherper RT @Ubercoat: It's like that scene in Footloose where they do a flashback to the previous scene #bog13
332868882962448385 May 10 10:45 @OmicsOmicsBlog RT @leonidkruglyak: Eric Lander asks if the 100 Gb field lily genome is next. #bog13
332868956081758208 May 10 10:45 @OmicsOmicsBlog RT @leonidkruglyak: Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332869133152681984 May 10 10:46 @OmicsOmicsBlog RT @ewanbirney: Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
332869153830600707 May 10 10:46 @OmicsOmicsBlog RT @GenomeNathan: Salzberg: Every pine nut on a tree has a unique haploid genome. #bog13
332869394126471169 May 10 10:47 @PaulFlicek Arabidopsis research clearly sponsored by the Swedish tourism board #bog13
332869415865565185 May 10 10:47 @ewanbirney Out iPad power (charge cable did not work last night) and iPads/iPhones have sticker IP address management than laptops. Ugh. #bog13
332869426795913217 May 10 10:47 @OmicsOmicsBlog RT @obahcall: AA shows recombination peak around transcription start sites in dogs, compared to nearly flat in humans #bog13
332869458894929920 May 10 10:47 @Magda_Skipper Nordborg: not a genome centre... We do state of the art without being cutting edge #bog13
332869544710373377 May 10 10:47 @Magda_Skipper RT @PaulFlicek: Arabidopsis research clearly sponsored by the Swedish tourism board #bog13
332869565627375616 May 10 10:47 @matthewherper RT @leonidkruglyak: Eric Lander asks if the 100 Gb field lily genome is next. #bog13
332869604902838272 May 10 10:47 @ewanbirney Magnus Nordborg takes us on a tour of sweden (under the pretence of explaining his Arabidopsis wild samples). #bog13
332869689455833088 May 10 10:48 @obahcall Magnus Nordborg: genotype-phenotype map in Arabidopsis; quick review 1001 Genome Project and into a new Swedish genome project #bog13
332869753800634373 May 10 10:48 @ewanbirney RT @PaulFlicek: Arabidopsis research clearly sponsored by the Swedish tourism board #bog13
332869822780149761 May 10 10:48 @notSoJunkDNA Arabidopsis as the best assembled genome? I used to think it was D. Melanogaster. But of course I was in a fly lab! #bog13
332869961649364992 May 10 10:49 @larsgt RT @PaulFlicek: Arabidopsis research clearly sponsored by the Swedish tourism board #bog13
332869988505485313 May 10 10:49 @notSoJunkDNA RT @PaulFlicek: Arabidopsis research clearly sponsored by the Swedish tourism board #bog13
332870183511285760 May 10 10:50 @casey6r0wn MN: "Genetics works best when it is simple" #bog13
332870289316794371 May 10 10:50 @notSoJunkDNA Also, I did my Master in Sweden, so I loved the pictures of Sweden. I have to say, it only looks like that a few weeks a year ;-) #bog13
332870460503109632 May 10 10:51 @obahcall For more on Arabidopsis thaliana 1001 Genome Project see http://bit.ly/179zSry and http://bit.ly/179zRnt #bog13
332870649125154817 May 10 10:52 @ewanbirney Great idea. do a GWAS on genome size - good hit around Polymerase. (not sure which one) in Arabidopsis #bog13
332870676379738112 May 10 10:52 @matthewherper RT @Magda_Skipper: Nordborg: Sweden a good place for fieldwork - small chance of anyone coming out at you with a shotgun #bog13
332870724274499585 May 10 10:52 @GenomeNathan Nordborg: We did a GWAS on mustard genome size(!) [raises koan: how many PCs to exclude?...] #bog13
332870767270301697 May 10 10:52 @matthewherper RT @ewanbirney: Great idea. do a GWAS on genome size - good hit around Polymerase. (not sure which one) in Arabidopsis #bog13
332870767442276352 May 10 10:52 @AlexAlexAlex184 RT @notSoJunkDNA: Arabidopsis as the best assembled genome? I used to think it was D. Melanogaster. But of course I was in a fly lab! #bog13
332870908983255040 May 10 10:53 @GenomeNathan RT @ewanbirney: Great idea. do a GWAS on genome size - good hit around Polymerase. (not sure which one) in Arabidopsis #bog13
332870910342217730 May 10 10:53 @anderson_carl Nordberg does a GWAS for genome size in aribadopsis and finds a significant locus. Pretty cool! #gwas #bog13
332871194103664641 May 10 10:54 @ewanbirney Arabidopisis Variance partitioning cis vs trans, and cis x env and trans x env, and pure env - work from Oliver Stegle from @emblebi #bog13
332871369261977602 May 10 10:54 @00livier @notSoJunkDNA @stevensalzberg1 we should sequence and study doppelgängers ! #bog13
332872371335725057 May 10 10:58 @anderson_carl Really excellent talk by Nordborg on arabidopsis. Given the scenic sample collection sites I’m tempted to switch fields! #bog13
332872617633648642 May 10 10:59 @sjackman RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332873168010240000 May 10 11:02 @matthewherper . @leonidkruglyak: Frank Albert did the work, it's his birthday, say hello to him. #bog13
332873542947446784 May 10 11:03 @ewanbirney @leonidkruglyak up to talk about eQTL mapping in the eukaryote we collectively know best - S. Cerevisiae (bread yeast) #bog13
332874237029253120 May 10 11:06 @ewanbirney Everytime I see functional studies in yeast I just get jealous. GFP tagged library. Haploid. A Population in a single well. #bog13
332874310450544640 May 10 11:06 @notSoJunkDNA . @leonidkruglyak on eXtreme QTL in yeast #bog13
332874795844792320 May 10 11:08 @elhong . @leonidkruglyak checks that high and low expression phenotypes are heritable and separable. Overlap due to cell-to-cell variation. #bog13
332874869387698176 May 10 11:08 @anderson_carl Ooh, @leonidkruglyak raises the stakes in the LOD score envy game. #bog13
332875068080259072 May 10 11:09 @obahcall RT @anderson_carl: Ooh, @leonidkruglyak raises the stakes in the LOD score envy game. #bog13
332875191610904577 May 10 11:10 @lukejostins @anderson_carl I know! Makes a "LOD score of 4!" celebration seem a little dull now #BoG13
332875198535700480 May 10 11:10 @dgmacarthur . @leonidkruglyak casually notes some of his yeast eQTL signals have LOD score over 200, which is “pretty significant”. #bog13
332875438756085761 May 10 11:11 @eperlste RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332875522340175873 May 10 11:11 @yeastgenome An SGD blog post on single cell gene expression in yeast that might be of interest to #bog13 http://www.yeastgenome.org/keeping-the-noise-down
332875577231024128 May 10 11:11 @sjackman RT @leonidkruglyak: Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332875778591162368 May 10 11:12 @ewanbirney @dgmacarthur @leonidkruglyak Human geneticists have yeast envy on LOD scores; molecular functional genomics on resources/experiments #bog13
332875800644820992 May 10 11:12 @IcahnInstitute RT @notSoJunkDNA: Just bought the book and got it signed by @konrad_jk. Now I need to find @jdudley #bog13 http://t.co/dLEEmM79hN
332875943934820352 May 10 11:13 @DocDer RT @KJClowers: A Terabyte of RAM required to assemble pine genome in 2 months #bog13
332875964952489985 May 10 11:13 @DocDer RT @Magda_Skipper: Salzberg on the pine genome, yes, there are all these plants out there to be characterised... #bog13
332877116498653185 May 10 11:17 @klmr At #bog13, @leonidkruglyak does it right: puts acknowledgements at the beginning rather than the end. http://schimelwritingscience.wordpress.com/2013/02/03/why-do-people-blow-the-punchline-in-scientitic-talks-the-destructive-effect-of-acknowledgements-slides/
332877692988956672 May 10 11:20 @carloshotta RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332877969674604544 May 10 11:21 @ewanbirney @leonidkruglyak Hmm. I wonder if this is an environmental sensing thing (hotspots). Redo the experiment in a different envir. #bog13
332878154337230849 May 10 11:21 @notSoJunkDNA The dynamic and Eco-responsiveness transcriptome of drosophila melanogaster. Ben Brown. modENCODE FTW! #bog13
332878589185884160 May 10 11:23 @GholsonLyon RT @klmr: At #bog13, @leonidkruglyak does it right: puts acknowledgements at the beginning rather than the end. http://schimelwritingscience.wordpress.com/2013/02/03/why-do-people-blow-the-punchline-in-scientitic-talks-the-destructive-effect-of-acknowledgements-slides/
332878666000379906 May 10 11:23 @matthewherper Brown: GRIT (generalized RNA integration tool) to look at fly transcipts. Looking at dystrophin. #bog13
332878828101849089 May 10 11:24 @matthewherper Wow. One of those genes codes for nearly 1k proteins. Some have many thousands of transcripts. #bog13
332879239219130370 May 10 11:26 @nextgenseek RT @obahcall: For more on Arabidopsis thaliana 1001 Genome Project see http://bit.ly/179zSry and http://bit.ly/179zRnt #bog13
332879295989051392 May 10 11:26 @leonidkruglyak Frank Albert, who did the work I just described, is @frankwalbert #bog13
332879465552166912 May 10 11:27 @matthewherper Brown: differentiating neural tissue is a driver of transcription in fruit flies. #bog13
332879555004071936 May 10 11:27 @Magda_Skipper Brown: in fly most transcriptional complexity is found in neural tissues #bog13
332880103254151169 May 10 11:29 @Magda_Skipper Brown: human brain samples also transcriptionally very complex, Jeffrey Loeb, Sue Celniker, FANTOM5 #bog13
332880755090931713 May 10 11:32 @ewanbirney Ben Brown talking us through the complexity of transcript/anti-sense transcript pairs. Flies and humans. #bog13
332881084557701121 May 10 11:33 @ewanbirney Ben has totally made the transition from pure statistician to computational biologist - talking gene names, dev stages with aplomb. #bog13
332881641963941888 May 10 11:35 @matthewherper Brown: Flies have a bump in the tail that you just don't see in humans and worms. But if you look in fresh neurons, does that change? #bog13
332882649091809282 May 10 11:39 @luke__ward B.Brown: same general transcriptional stress response seen in fly experiments as in fish post-deepwater horiz http://www.pnas.org/content/early/2011/09/21/1109545108.abstract #bog13
332882706448932865 May 10 11:39 @leonidkruglyak Brown: "Jeff cuts out a bit of brain" #bog13 #betteroutofcontext
332882758923849729 May 10 11:40 @jaquol RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
332883162894061569 May 10 11:41 @bioinfosm RT @ewanbirney Ben Brown talking us through the complexity of transcript/anti-sense transcript pairs. Flies and humans. #bog13
332883227146596352 May 10 11:42 @frankwalbert next up: Lenore Pipes on transcriptomics in the amazing Novosibirsk domesticated foxes #bog13
332883386752446464 May 10 11:42 @leonidkruglyak Lenore Pipes (first year grad student!) talking about the famous Belyaev tame foxes. #bog13
332883433435037698 May 10 11:42 @bioinfosm RT @matthewherper Brown: GRIT (generalized RNA integration tool) to look at fly transcipts. Looking at dystrophin. #bog13
332883694803111938 May 10 11:43 @leonidkruglyak Jealous of the fox phenotype movies #bog13
332883702692589568 May 10 11:43 @lexnederbragt RT @leonidkruglyak: Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332883729636802560 May 10 11:44 @lexnederbragt RT @GenomeNathan: Salzberg: Every pine nut on a tree has a unique haploid genome. #bog13
332883810322636801 May 10 11:44 @lukejostins Cute Animal Friday at #BoG13 - Lenore Pipes is talking about (and showing videos of) domesticated silver foxes
332883919944941568 May 10 11:44 @Magda_Skipper Pipes: silver foxes bred to be tame can be 'worn' without the need to kill them first #bog13
332883971170000896 May 10 11:44 @spreadsciencED Lenore Pipes: Changes in RNA-seq profiles of silver foxes after 50 generations of selection on tame/aggressive behaviors #BoG13
332884041713987584 May 10 11:45 @ewanbirney Pipes: Great phenotyping in domesticated Silver foxes; response to humans. A silver fox colony was selected for being tame #bog13
332884082625228800 May 10 11:45 @lukejostins Oh now LP is cutting up their brains. Cuteness whiplash. #BoG13
332884289018540032 May 10 11:46 @ewanbirney RT @leonidkruglyak: Jealous of the fox phenotype movies #bog13
332884396636004354 May 10 11:46 @probablechemist Love the slides on Lenore Pipes' talk about RNA-Seq profiles of silver foxes - a cute picture of a fox on every slide! #bog13
332884423982866432 May 10 11:46 @juansearch #bog13 Pippes: Where in Russia do I go to get one of these friendly tame silver foxes?
332884439308845056 May 10 11:46 @spreadsciencED RT @leonidkruglyak: Jealous of the fox phenotype movies #bog13
332884576856842240 May 10 11:47 @probablechemist ...also, never knew silver fox was an actual fox species and not just a human euphemism... #bog13
332884633177976833 May 10 11:47 @anderson_carl Pipes talking about the genetics of domestication and behaviour. Comparing transcriptome of aggressive and tame foxes. Awesome stuff. #bog13
332884805157007360 May 10 11:48 @notSoJunkDNA As a neighbor, I ask you not to! RT @juansearch: #bog13 Pippes: Where in Russia do I go to get one of these friendly tame silver foxes?”
332885154836127744 May 10 11:49 @genomeresearch Mapping aggression-Read more about the Russian silver fox colony http://tinyurl.com/3ppmyj #bog13
332885273341992960 May 10 11:50 @notSoJunkDNA RT @genomeresearch: Mapping aggression-Read more about the Russian silver fox colony http://tinyurl.com/3ppmyj #bog13
332885390291779584 May 10 11:50 @spreadsciencED RT @genomeresearch: Mapping aggression-Read more about the Russian silver fox colony http://tinyurl.com/3ppmyj #bog13
332885576674054144 May 10 11:51 @pierrekerner RT @genomeresearch: Mapping aggression-Read more about the Russian silver fox colony http://tinyurl.com/3ppmyj #bog13
332886247875956738 May 10 11:54 @vezzi84 De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
332886438943289344 May 10 11:54 @leonidkruglyak .@notSoJunkDNA @juansearch I seem to recall some plan to sell tame foxes as pets... #bog13
332886609861148672 May 10 11:55 @leonidkruglyak Pipes: I'd like to close with an observation from French literature. #bog13
332886700583952384 May 10 11:55 @leonidkruglyak RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
332886966171484160 May 10 11:56 @genomeresearch LPipes Genes that may make dogs man's best friend? #bog13
332886998341787648 May 10 11:56 @cusanovich .@erlichya - You sure that *Enhancers* is the winner? The wordle makes it look like *tweets* is the most popular term. #bog13 #aahinternet
332887027882291200 May 10 11:57 @leonidkruglyak Pipes: in case there's a prize for the cutest closing image...FOX PUPPIES!!! #bog13
332887070743883779 May 10 11:57 @notSoJunkDNA Pipes surely wins the price for the cutest closing slide. With extra points for the Saint Exupery citation! #bog13
332887083679088640 May 10 11:57 @frankwalbert .@leonidkruglyak @notsojunkdna @juansearch they did sell them for a while in Russia, export to US was customs-challenged AFAIK #bog13
332887278127022082 May 10 11:58 @Magda_Skipper You are forever responsible for what you have tamed RT @leonidkruglyak: Pipes: I'd like to close with an observation from French lit #bog13
332887311295586305 May 10 11:58 @OmicsOmicsBlog RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
332887326575427584 May 10 11:58 @mwilsonsayres RT @genomeresearch: Mapping aggression-Read more about the Russian silver fox colony http://tinyurl.com/3ppmyj #bog13
332887484755230720 May 10 11:58 @Magda_Skipper RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
332887655530508288 May 10 11:59 @ngsgene Cuteness @ #bog13 for a change!! MT @leonidkruglyak58s Pipes: in case there's a prize for the cutest closing image FOX PUPPIES!!!!
332887833289293824 May 10 12:00 @professordeka RT @genomeresearch: LPipes Genes that may make dogs man's best friend? #bog13
332888168774901760 May 10 12:01 @ctitusbrown RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
332888359158550528 May 10 12:02 @ctitusbrown RT @leonidkruglyak: Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332888717905776641 May 10 12:03 @Mirimus What a beautiful day for #bog13! @genomeresearch @CSHLnews #science #research http://t.co/wJ3v1lgMFy
332889826875539457 May 10 12:08 @mwilsonsayres Already upset about missing #bog13, now @leonidkruglyak says I'm missing fox puppies!? At least I can read about them http://tinyurl.com/3ppmyj
332890173585104896 May 10 12:09 @Ubercoat Lenore Pipes reported upregulation of neural receptors in Belyaev's tame silver foxes. Great talk - and she's a first year! #whaaat #bog13
332890769159507968 May 10 12:11 @assemblathon Keep following the #bog13 hash tag for lots of assembly-related tweets coming out of the Biology of Genomes meeting.
332891395381665792 May 10 12:14 @cntalavera RT @leonidkruglyak: Next up, 35 Gb genome "because we like to torture our assembly people" #bog13
332892297400303616 May 10 12:18 @cntalavera RT @ewanbirney: Great idea. do a GWAS on genome size - good hit around Polymerase. (not sure which one) in Arabidopsis #bog13
332892398805987329 May 10 12:18 @lexnederbragt RT @assemblathon: Keep following the #bog13 hash tag for lots of assembly-related tweets coming out of the Biology of Genomes meeting.
332893918968549376 May 10 12:24 @arvestad RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
332894947969744897 May 10 12:28 @evolvability RT @notSoJunkDNA: Adam Auton (@EinsteinMed) : Genetic recombination is targeted towards gene promoter regions in dogs #bog13
332895006589333506 May 10 12:28 @evolvability RT @notSoJunkDNA: AA: recombination hotspots are not shared between species (even closely related) #bog13
332895139464880129 May 10 12:29 @evolvability RT @notSoJunkDNA: AA PRDM9 is completely dysfunctional in dogs! #bog13
332895725627248640 May 10 12:31 @Awesomics CMA vs karyotyping http://www.ajog.org/article/S0002-9378(11)01317-2/fulltext MT @GenomeNathan Wapner: 1/10th of DNA in pregnant woman's plasma is fetal. 200-400b frags #bog13
332897428665671681 May 10 12:38 @Ubercoat If the tame foxes sounded familiar, they should - radiolab did a bit on them a while back: http://www.radiolab.org/2009/oct/19/new-nice/ #bog13
332899889921011712 May 10 12:48 @drbachinsky RT @leonidkruglyak: Eric Lander asks if the 100 Gb field lily genome is next. #bog13
332912856423088128 May 10 13:39 @bullymom2 #bog13 a restful lunchtime nap was just the thing before poster session. I'd love your feedback on poster 292, before I submit...
332918015203094529 May 10 14:00 @leonidkruglyak RT @bullymom2: #bog13 a restful lunchtime nap was just the thing before poster session. I'd love your feedback on poster 292, before I submit...
332920370657124352 May 10 14:09 @Mirimus Hello to all of our new followers from #bog13! Like Mirimus on Facebook to stay up-to-date on Mirimus news https://www.facebook.com/MirimusInc
332920433106104322 May 10 14:09 @HeidiSchulz4 RT @GenomeNathan: Wapner: ~1/10th of cell-free DNA in pregnant woman's plasma is fetal. Largely 200-400b fragments. #bog13
332922050018684928 May 10 14:16 @sjackman RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
332922469440692226 May 10 14:17 @RobAboukhalil Attn #bog13 participants: check out tweet activity @ http://www.technophilicmag.com/bog13. Top twitterers so far: @bullymom2, @ewanbirney & @girlscientist
332926428695896066 May 10 14:33 @caseybergman @frankwalbert @leonidkruglyak @notSoJunkDNA @juansearch - domestic foxes available here http://www.domesticfox.com/#!buy-a-fox for $8,900 USD #bog13
332927201097953280 May 10 14:36 @drbachinsky RT @RobAboukhalil: Attn #bog13 participants: check out tweet activity @ http://www.technophilicmag.com/bog13. Top twitterers so far: @bullymom2, @ewanbirney & @girlscientist
332928144015233024 May 10 14:40 @OpenWorm RT @yeastgenome: An SGD blog post on single cell gene expression in yeast that might be of interest to #bog13 http://www.yeastgenome.org/keeping-the-noise-down
332931168297164800 May 10 14:52 @nlbigas New post in our blog to share the poster presented at the Biology of Genomes on IntOGen, Cancer Genomics #bog13 http://bg.upf.edu/blog/2013/05/the-biology-of-genomes-meeting-at-cshl-my-poster-about-intogen/
332931363961446401 May 10 14:53 @biocomicals RT @nlbigas: New post in our blog to share the poster presented at the Biology of Genomes on IntOGen, Cancer Genomics #bog13 http://t.co/SXE5x6zmQg
332936260136083456 May 10 15:12 @abeldavidgp RT @nlbigas: New post in our blog to share the poster presented at the Biology of Genomes on IntOGen, Cancer Genomics #bog13 http://t.co/SXE5x6zmQg
332937286176088064 May 10 15:16 @bioinfosm lots of #genomics #NGS conferences after #BOG13 - #NGSTranslate #BTG13.. I like this list by @BlueSEQ http://blueseq.com/knowledgebank/ngs-conferences-and-meetings/ #bioinformatics
332939305196593152 May 10 15:24 @zhihaoding RT @bioinfosm: lots of #genomics #NGS conferences after #BOG13 - #NGSTranslate #BTG13.. I like this list by @BlueSEQ http://blueseq.com/knowledgebank/ngs-conferences-and-meetings/ #bioinformatics
332939340286152704 May 10 15:24 @bioinfosm love #BOG13 report, especially top lists & most popular - @leonidkruglyak @ewanbirney @notSoJunkDNA !!! https://www.hashtracking.com/reports/sm/bog13/8hk1j9W8 #genomics
332941972295794689 May 10 15:35 @mcaccamo RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
332942452405182464 May 10 15:37 @vangos RT @yeastgenome: An SGD blog post on single cell gene expression in yeast that might be of interest to #bog13 http://www.yeastgenome.org/keeping-the-noise-down
332943175410933761 May 10 15:40 @lpipes Got some positive vibes from my talk on foxes! #foxtranscriptomics #bog13
332943916896768000 May 10 15:43 @larry_parnell At #bog13 Zero abstract w term Nutrition, 4 w Diet, 2 Obesity, 2 GxE interaction (plus few gene-drug interactions). Need more nutrigenomics
332945229504188416 May 10 15:48 @lpipes RT @genomeresearch: LPipes Genes that may make dogs man's best friend? #bog13
332947179918467073 May 10 15:56 @lpipes A little souvenir from my first time at cold spring harbor laboratory #bog13 http://t.co/qxBmkLEGIw
332947379693166592 May 10 15:56 @mcaccamo RT @PaulFlicek: Arabidopsis research clearly sponsored by the Swedish tourism board #bog13
332948755798192128 May 10 16:02 @SBGenomics Showing divergence in SNP/indel calls among analysis pipelines (from lib prep to VCF processing) poster 367 #bog13 http://t.co/jJnroXLYWt
332954037911691264 May 10 16:23 @leonidkruglyak RT @bioinfosm: love #BOG13 report, especially top lists & most popular - @leonidkruglyak @ewanbirney @notSoJunkDNA !!! https://t.co/xKvXxaoTgs #genomics
332954447921676288 May 10 16:25 @nextgenseek RT @larry_parnell: At #bog13 Zero abstract w term Nutrition, 4 w Diet, 2 Obesity, 2 GxE interaction (plus few gene-drug interactions). Need more nutrigenomics
332954614292955137 May 10 16:25 @girlscientist Neither talk in this keynote session is tweetable. #bog13
332955343564976128 May 10 16:28 @girlscientist Also, I am not supposed to tweet that Carlos Bustamante is totally styling and dressed spiffily. #bog13
332955489187028993 May 10 16:29 @JavierHerrero7 Poster on lamprey and WGD (@JeramiahJSmith). Evidence supports 1 single event instead of the generally accepted 2 rounds #bog13
332956731946704897 May 10 16:34 @notSoJunkDNA RT @girlscientist: Neither talk in this keynote session is tweetable. #bog13
332956801333075968 May 10 16:34 @notSoJunkDNA RT @girlscientist: Also, I am not supposed to tweet that Carlos Bustamante is totally styling and dressed spiffily. #bog13
332957275234893825 May 10 16:36 @leonidkruglyak RT @girlscientist: Neither talk in this keynote session is tweetable. #bog13
332959028382683136 May 10 16:43 @leonidkruglyak GWAS on people who watch #bog13 talks inside vs outside?
332961091841830912 May 10 16:51 @timspector @leonidkruglyak #bog13
332961547095781377 May 10 16:53 @timspector @leonidkruglyak #bog13 it could be the gene locus for being too cool or disorganised to get an early seat
332962932906401793 May 10 16:58 @MickeyAtwal Profiling the tweet activity at #bog13 via my grad student @RobAboukhalil . http://www.technophilicmag.com/bog13/
332963213551480832 May 10 16:59 @notSoJunkDNA RT @MickeyAtwal: Profiling the tweet activity at #bog13 via my grad student @RobAboukhalil . http://www.technophilicmag.com/bog13/
332965335588274176 May 10 17:08 @bmahersciwriter RT @MickeyAtwal: Profiling the tweet activity at #bog13 via my grad student @RobAboukhalil . http://www.technophilicmag.com/bog13/
332965344245329920 May 10 17:08 @leonidkruglyak Cold Spring Harbor cove, panorama. #bog13 http://t.co/23ReJAikzW
332966120187367424 May 10 17:11 @AvaGrace246 #bog13: scientists drooling over LOD scores>200 in yeast(!) and fox puppies!? Cannot get more pathetic than that...waste of taxpayers money
332966503056023552 May 10 17:12 @notSoJunkDNA @leonidkruglyak same place, a few hours earlier at High Tide! #bog13 http://t.co/3EnAZUwC1l
332966807268904960 May 10 17:14 @GenomeBiology Was hoping the twitter bird was going to be able to return to his perch. Seems not. #bog13
332966862730170369 May 10 17:14 @GenomeNathan RT @leonidkruglyak: Cold Spring Harbor cove, panorama. #bog13 http://t.co/23ReJAikzW
332966878001639424 May 10 17:14 @GenomeNathan RT @notSoJunkDNA: @leonidkruglyak same place, a few hours earlier at High Tide! #bog13 http://t.co/3EnAZUwC1l
332967406282604546 May 10 17:16 @GenomeNathan @notSoJunkDNA @leonidkruglyak Intertidal mussels. #bog13 http://t.co/fbxUwzqSzm
332967680749490177 May 10 17:17 @leonidkruglyak Perhaps the epitome of introducing someone who needs no introduction. #bog13
332968954941292544 May 10 17:22 @leonidkruglyak Making good progress on genome conference bingo a few min into this keynote. #bog13
332969429526786048 May 10 17:24 @notSoJunkDNA @leonidkruglyak I haven't heard CLIA or Actionnable variant as much as expected #bog13
332969549320318976 May 10 17:25 @jcbarret @jcbarret: BINGO! http://esquilax.stanford.edu/media/graphics/bingo/@jcbarret_vWTwcA.png #interpretome #bog13 thx to nhgri seq graph :)
332970788074422273 May 10 17:29 @girlscientist There it is; knew that slide was coming! #bog13
332971226303709185 May 10 17:31 @michaelhoffman @girlscientist Trying to guess which one. Is it sequence bases over time? #bog13
332971254481039361 May 10 17:31 @darnelr #bog13 @eric_lander suggests with HiSeq, GWAS & exome seq are parts of a spectrum: Common and Rare variant association study, CVAS and RVAS
332971644966551553 May 10 17:33 @konrad_jk BINGO! Second bingo card just hit through both NHGRI graphs! http://esquilax.stanford.edu/media/graphics/bingo/konrad_jk_eDOoZY.png #interpretome #bog13
332973430049738753 May 10 17:40 @monsieurracs RT @leonidkruglyak: Salzberg talking about sequencing the 22 GIGABASE pine tree genome. #bog13
332973576774881280 May 10 17:41 @bioinfosm perhaps for a conf "clinical interpretation of genomes" MT ‏@notSoJunkDNA @leonidkruglyak haven't heard CLIA/Actionnable as much #bog13
332974031236124673 May 10 17:42 @darnelr #bog13 Schizophrenia in 2009, 0 GWAS oci, now up to 93 genomie-wide loci, hit with RNAs bound by FMRP described in http://tinyurl.com/ctoef5s
332975038603075584 May 10 17:46 @konrad_jk Man. So much to say about this non tweetable keynote! Great insights from Eric Lander #bog13
332975280782188545 May 10 17:47 @leonidkruglyak Oh I'm just twitching to comment on this talk! #bog13
332975369764368384 May 10 17:48 @leonidkruglyak GATTACA! #bog13
332975832891002880 May 10 17:49 @evolvability RT @konrad_jk: Man. So much to say about this non tweetable keynote! Great insights from Eric Lander #bog13
332976175364337664 May 10 17:51 @joe_pickrell @leonidkruglyak you're not the only one! #bog13
332976397423374336 May 10 17:52 @johnhawks First rule of #bog13 is you don't tweet about #bog13. RT @leonidkruglyak: Oh I'm just twitching to comment on this talk! #bog13
332976643524141057 May 10 17:53 @notSoJunkDNA #popcorn RT “@leonidkruglyak: Oh I'm just twitching to comment on this talk! #bog13”
332976780128440320 May 10 17:53 @RobAboukhalil @joe_pickrell @leonidkruglyak Of all talks, keynotes should be tweetable... #bog13
332976803931123713 May 10 17:53 @joe_pickrell @girlscientist @leonidkruglyak @konrad_jk ok, I'm young, but this is *not* the history of the field I learned :) #bog13
332976853298077696 May 10 17:54 @bioinfosm awesome/copious #BOG13 tweets @leonidkruglyak @notSoJunkDNA @GenomeNathan @bullymom2 @ewanbirney @matthewherper https://www.hashtracking.com/reports/sm/bog13/8hk1j9W8 1/2
332977270337716226 May 10 17:55 @bioinfosm these #BOG13 tweets archived by @erlichya - https://docs.google.com/spreadsheet/pub?key=0ArGR3vP--1WndHIybHMycW5scV9EUHFLOC1JNk5TeVE&single=true&gid=82&output=html 2/2
332978292984541184 May 10 17:59 @leonidkruglyak Predictably, 1 the talk is going way over and 2 nobody minds. #bog13
332978354670153728 May 10 18:00 @leonidkruglyak RT @joe_pickrell: @girlscientist @leonidkruglyak @konrad_jk ok, I'm young, but this is *not* the history of the field I learned :) #bog13
332978853544882178 May 10 18:01 @evolvability @konrad_jk guess folks have to catch it online if they have access #bog13 #secretstrand
332979149289439232 May 10 18:03 @leonidkruglyak PowerPoint malfunction right at the crescendo... #bog13
332980683330945024 May 10 18:09 @Graham_Coop RT @joe_pickrell: @girlscientist @leonidkruglyak @konrad_jk ok, I'm young, but this is *not* the history of the field I learned :) #bog13
332982014103937024 May 10 18:14 @leonidkruglyak Ooh, a question on big science #bog13
332982493986824192 May 10 18:16 @RobAboukhalil RT @leonidkruglyak: Ooh, a question on big science #bog13
332983338493169664 May 10 18:19 @bullymom2 Drinks are served #bog13
332987147290279937 May 10 18:34 @dawidgnowak RT @RobAboukhalil: Attn #bog13 participants: check out tweet activity @ http://www.technophilicmag.com/bog13. Top twitterers so far: @bullymom2, @ewanbirney & @girlscientist
332993811070459906 May 10 19:01 @technophilicmag RT @RobAboukhalil: Attn #bog13 participants: check out tweet activity @ http://www.technophilicmag.com/bog13. Top twitterers so far: @bullymom2, @ewanbirney & @girlscientist
332994265053540353 May 10 19:03 @Ubercoat Ask not for whom the bell tolls - it tolls for lobster #bog13
333001769678426112 May 10 19:33 @sphel70 As someone following #bog13 remotely, i wonder why one would present data in a public forum but ban tweets. If it's sensitive, why present?
333004568784945153 May 10 19:44 @JarredRWilson @sphel70 I'm not sure what #bog13 is, but a tweet gag order is bonkers!
333008791417282560 May 10 20:00 @notSoJunkDNA Roasted in honor of the genomic community! #bog13 http://t.co/neifJmwlOF
333012122650943488 May 10 20:14 @larry_parnell catching up on #bog13 talks missed by watching uploaded videos: my schedule: late start, break when I want
333014930351591427 May 10 20:25 @danrdanny Not much tweeting going on during dinner. Nobody wants to touch their phones/iPads. #lobster #bog13
333018475016642560 May 10 20:39 @evolvability @notSoJunkDNA hope @erlichya wasn't too upset about this #bog13
333021630165053440 May 10 20:51 @erlichya Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333022751759675393 May 10 20:56 @CrowdedHead RT @obahcall: Great summary Sophia K's talk last night, single cell analysis of a pediatric brain tumor #bog13 @ciarzc @DailyScan http://t.co/UfPUrVv7gC
333022872035528705 May 10 20:56 @KevinADavies RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333022920127426562 May 10 20:57 @CrowdedHead RT @notSoJunkDNA: Q. to JM: can you study allelic expression at the single-cell level? A: thinking about it, some ideas to do it #bog13
333023010854404096 May 10 20:57 @CrowdedHead RT @GenomeBiology: John Marioni's #bog13 talk is on single-cell RNA-seq technical noise - see his recent GB paper for more on this work http://t.co/VVBiqmnh3q
333023105758924800 May 10 20:57 @robin_andersson RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333023207495974912 May 10 20:58 @CrowdedHead RT @JavierHerrero7: JM presents the new Sanger-EBI single-cell center http://po.st/VReV6O #bog13
333026880192139265 May 10 21:12 @PosterDavid Per #bog13 tweets Lander said genes in the 93 (so-called) GWAS loci for SZ are associated with FMRP=BS GALORE see: https://sfari.org/news-and-opinion/news/2013/hunt-for-targets-of-fragile-x-protein-proves-perplexing
333027103412981760 May 10 21:13 @nextgenseek RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333028673647161345 May 10 21:19 @sphel70 RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333039305092108291 May 10 22:02 @notSoJunkDNA RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333043911931076608 May 10 22:20 @spreadsciencED RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333052555326263296 May 10 22:54 @duffeleanor RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333055810659823616 May 10 23:07 @dgmacarthur RT @obahcall: #bog13 grads/docs:Enjoy broad perspective of the field? Interested in editorial work? Join editors of @NatureRevGenet http://t.co/y2PWbILsCM
333059200404049920 May 10 23:21 @notSoJunkDNA I wonder if the 1986 CSHL meeting @eric_lander talked about was tweetable? And how was the Wifi in Grace that year? #bog86 #bog13
333106284872204289 May 11 02:28 @JavierHerrero7 Hard to tell as WWW is only 20 years old: http://info.cern.ch/ :-) @notSoJunkDNA @eric_lander #bog13
333120953104084992 May 11 03:26 @fmartin1954 RT @Magda_Skipper: Salzberg: pine genome seq available at http://pinegenome.org/pinerefseq site #bog13
333121365962002434 May 11 03:28 @fmartin1954 RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
333127176926924800 May 11 03:51 @k26stan RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333130427348959232 May 11 04:04 @amrojasmendoza RT @JavierHerrero7: Hard to tell as WWW is only 20 years old: http://info.cern.ch/ :-) @notSoJunkDNA @eric_lander #bog13
333159966032662528 May 11 06:01 @SeqComplete buzz- The Biology of Genomes #bog13 is out! http://paper.li/SeqComplete/1363021264 ▸ Top stories today via @PosterDavid @fmartin1954
333169492567920640 May 11 06:39 @PosterDavid Please major journals, for the sake of field/patients don't buy into #bog13 FMRP-SZ BS: bog13 editors @obahcall @Magda_Skipper see my tweets
333175179339513857 May 11 07:02 @mortm RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333203191816650753 May 11 08:53 @notSoJunkDNA Last session of #bog13. Getting ready for a series of jokes on coffee, late night and closed eyes in the back. #lame
333203896166133760 May 11 08:56 @joe_pickrell @notSoJunkDNA has a presenter ever fallen asleep during their own talk? Could be a first! #bog13
333204769206329344 May 11 08:59 @homolog_us Steven Salzberg at #bog13: Assembling 22Gb Conifer Genome (http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/)
333205350046105603 May 11 09:02 @girlscientist Last morning of #bog13. Molly Pzreworski will be one of organizers for the next 4 years; congrats Molly! Popgen will not be in Sat in 2014.
333205561422270464 May 11 09:02 @SahaSurya @homolog_us @StevenSalzberg1 at #bog13: Assembling 22Gb Conifer Genome (http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/ …) #NGS #bioinformatics
333205716036890624 May 11 09:03 @girlscientist Adam Siepel of Cornell, on his program ARGweaver for ancestral recombination graphs. Says he is catching audience at their weakest. #bog13
333205808957497345 May 11 09:03 @ewanbirney The closing slot is population genetics and Adam Siepel leads off on ancestral graphs. Perfect with a delicate head from last night. #bog13
333206392334848002 May 11 09:06 @SahaSurya @Cornell's Adam Siepel http://compgen.bscb.cornell.edu/~acs/ talking on population genetics and ancestral graphs #bog13
333207074823610368 May 11 09:08 @SahaSurya And Adam's on twitter @asiepel #bog13
333207740346404864 May 11 09:11 @HHMINEWS RT @girlscientist: Last morning of #bog13. Molly Pzreworski will be one of organizers for the next 4 years; congrats Molly! Popgen will not be in Sat in 2014.
333207814140985344 May 11 09:11 @ewanbirney Good idea : consider a graph for n-1 samples. Add in one more sequence to create a graph n. with the right maths. #bog13
333207966696235009 May 11 09:12 @GenomeNathan Siepel: We all want to know the ancestral recombination graph. Many clever inferential methods damned to roughly approximate. #bog13
333208263862673409 May 11 09:13 @GenomeNathan Siepel: To explore, can readily simulate ARGs by sequential markov coalescent. But sampling the resulting possibilities hard. #bog13
333208277955518464 May 11 09:13 @ewanbirney Adam will put this on arxive ... One for @Haldanessieve commentary ?#bog13
333208310000005121 May 11 09:13 @notSoJunkDNA Adam Speipel announce that his manuscript for ARGweaver will be on arXiv in a week or two. #bog13
333208684878503936 May 11 09:15 @nextgenseek RT @girlscientist: Last morning of #bog13. Molly Pzreworski will be one of organizers for the next 4 years; congrats Molly! Popgen will not be in Sat in 2014.
333208884221181953 May 11 09:16 @obahcall #bog13 Cheers to Joel Hirschhorn as he rotates off the organizing committee, Congratulating Molly Pzreworski for joining #bog14 organizers
333208947420966912 May 11 09:16 @GenomeNathan Siepel: ARGweaver re-samples branches by 'subtree threading'. Converges fast, infers summary features (total depth, &c.) fairly well. #bog13
333209027326668800 May 11 09:16 @ewanbirney Simulations look good. This is going to be great for population statistics and histories ... Time for real data #bog13
333209487550849024 May 11 09:18 @girlscientist If you're interested in methods to recover population history, definitely check out Rasmussen & Siepel paper in Arxiv in week or so. #bog13
333209704991961088 May 11 09:19 @joe_pickrell Siepel: lovely plot showing decrease in mean tMRCA near genes #bog13
333209829944463361 May 11 09:19 @obahcall #bog14 will reorganize sessions (freeing pop gen from this closing slot), hope to include a clinical translation session #bog13
333210069485359105 May 11 09:20 @GenomeNathan Siepel shows nifty tool to visualize recombinational affinity contour of haplotypes inferred by ARGweaver. #bog13
333210134002155521 May 11 09:21 @nextgenseek RT @homolog_us: Steven Salzberg at #bog13: Assembling 22Gb Conifer Genome (http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/)
333210535858417664 May 11 09:22 @GenomeNathan Birney: How robust is ARGweaver to errors in input data? Siepel: We don't know yet. #bog13
333210724975382528 May 11 09:23 @Graham_Coop RT @obahcall: #bog13 Cheers to Joel Hirschhorn as he rotates off the organizing committee, Congratulating Molly Pzreworski for joining #bog14 organizers
333210931091869696 May 11 09:24 @ewanbirney Is caste llano tweet able? I can't see the board well ... #bog13
333210938788429824 May 11 09:24 @girlscientist Correlation between talks on Neandertals and inability to tweet continues with the next talk by Castellano. #bog13
333211129906094081 May 11 09:24 @notSoJunkDNA How did Neanderthals went to England? (Question from a Frenchman) #bog13
333211387058872322 May 11 09:26 @ewanbirney @girlscientist sample size of two, but not tweet able talks are rare at #bog13 . Hmmm. Need a pvalue on Neanderthal <=> tweet able :)
333211755939504130 May 11 09:27 @SahaSurya MT @notSoJunkDNA: @asiepel announces that his manuscript for ARGweaver will be on arXiv in a week or two. #bog13
333211794430644224 May 11 09:27 @GenomeNathan Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333212461425635328 May 11 09:30 @Magda_Skipper Did I drink too much last night or was the Neandertal genome 2010 paper attributed to Nature a couple of slides ago? #bog13
333212711473262594 May 11 09:31 @Graham_Coop RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333212939978940417 May 11 09:32 @evolvability RT @girlscientist: Correlation between talks on Neandertals and inability to tweet continues with the next talk by Castellano. #bog13
333212978642026497 May 11 09:32 @OmicsOmicsBlog RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333213091284267008 May 11 09:32 @evolvability RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333213376400461825 May 11 09:33 @johnpharmd RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333213639530127361 May 11 09:34 @anderson_carl RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333214750911635457 May 11 09:39 @sheacshl Don’t understand presenting work to the 600 people most likely to scoop you and then saying “shh lets keep this btw us” #BoG13 @DrLabRatOry
333214932072017921 May 11 09:40 @APV2600 RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333215029207900161 May 11 09:40 @GenomeBiology RT @obahcall: #bog13 Cheers to Joel Hirschhorn as he rotates off the organizing committee, Congratulating Molly Pzreworski for joining #bog14 organizers
333215887903571968 May 11 09:43 @avinashtn RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333216060721463296 May 11 09:44 @ewanbirney Gravel on migration patterns in humans - in the Americas. I love this genetic history stuff - #bog13
333216204263149570 May 11 09:45 @bullymom2 I missed this for #bog13. worth it. MT @kcnews: RT @scottskomo: Thurs broke all-time #Seattle record for 1st 9 days of May >65° with 0 rain.
333216303563276289 May 11 09:45 @SahaSurya +1 @sheacshl: Don’t understand presenting work to the 600 people most likely to scoop you and then saying “shh lets keep this btw us” #BoG13
333216310676832259 May 11 09:45 @girlscientist Simon Gravel now on genetic history of Americas, from 1000Genomes data. Use ADMIXTURE software to determine proportions of ancestry. #bog13
333216807445995520 May 11 09:47 @ewanbirney Mexicans have the most Native American ancestry. Peutro Ricans least. Need to untangle the ancestry first before deeper history #bog13
333216926081892353 May 11 09:48 @obahcall Simon Gravel using 1000 Genomes data to inform on genetic history of the Americas, reconstructing Native American migrations #bog13
333217139966230528 May 11 09:48 @nextgenseek RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333217248284123137 May 11 09:49 @girlscientist Gravel: finding migration model to explain the observed blocks of European, Native American, African ancestry in Puerto Ricans. #bog13
333217536436998144 May 11 09:50 @VinJLynch RT @girlscientist: Last morning of #bog13. Molly Pzreworski will be one of organizers for the next 4 years; congrats Molly! Popgen will not be in Sat in 2014.
333217817887399936 May 11 09:51 @Magda_Skipper Gravel: Single admixture event in Puerto Rico, 16 generations ago; unlike Colombians where events are multiple or continuous #bog13
333217851752194048 May 11 09:51 @ewanbirney Puerto Ricans - a single event, on European Arrival. Colombians consistent with a more constant flow of Native American population #bog13
333218645977210881 May 11 09:54 @tuuliel Simon Gravel dissecting ancestry blocks to reconstruct Native American population history. #bog13
333218737337556992 May 11 09:55 @GenomeNathan Gravel: Long IBD blocks within latino pops tend to show mosaic continental ancestry -> post-contact inbreeding in Americas. #bog13
333218811459284993 May 11 09:55 @leonidkruglyak From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333218991566901248 May 11 09:56 @Magda_Skipper Gravel: implications of whether a mutation is within Native Am or European ancestry track #bog13
333219082545537027 May 11 09:56 @GenomeNathan Gravel: But between latino pops, IBD blocks tend to show singular continental ancestry -> last shared ancestors pre-contact. #bog13
333219118742401024 May 11 09:56 @ewanbirney Very cool. European founders ... Diverged a bit from the Iberian mass. Consequences for gwas in admixed populations. #bog13
333219506128302082 May 11 09:58 @leonidkruglyak Having worked with one in worms before, mucins are complicated: http://1.usa.gov/15yCeRp #bog13
333219680162557953 May 11 09:58 @girlscientist Similar to other studies, Gravel's extensive population sampling gives human mutation rate of 1.44 X 10-8 per bp per generation. #bog13
333219700689469440 May 11 09:59 @sheacshl This stance based on very old fashioned view of sci mtgs as secret conclaves. We fear what we don’t understand #bog13 @girlscientist
333219881782738944 May 11 09:59 @ccots RT @leonidkruglyak: I call for a moratorium on the "Darwin with beard" as human avatar on primate phylogeny trees. #bog13
333220029497757696 May 11 10:00 @genetisaur SG: differences in effective sizes between MXL, CLM, and PUR but similar split times. #bog13
333220535163039744 May 11 10:02 @yuorme RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333220536056418304 May 11 10:02 @GenomeNathan Other Gravel summary point: Taino likely trace to s. America (but we knew this, right?). #bog13
333220835294867456 May 11 10:03 @ewanbirney @GenomeNathan implies that the initial spainards went through a bottleneck in new world. I wonder about sex bias #bog13
333221065335664640 May 11 10:04 @girlscientist Next up @joe_pickrell: using population patterns and ancestry to examine waves of sub-Saharan African migrations. #bog13
333221417980141568 May 11 10:05 @mucociliary Population variant found on the lawn #bog13 http://t.co/EhvgtrcH4o
333221471239421953 May 11 10:06 @ewanbirney A big welcome to @joe_pickrell to #bog13 podium. sub Sarahan human history. These studies are so cool.
333222152394387456 May 11 10:08 @GenomeNathan Pickrell: migration, like other factors (pathogen environment &c.), key to understanding spatial patterns of human genetic diversity. #bog13
333222297596985344 May 11 10:09 @dsljunk15 RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333222332904648704 May 11 10:09 @drbachinsky RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333222926977482753 May 11 10:11 @VinJLynch RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333223105382191106 May 11 10:12 @girlscientist .@joe_pickrell: His data show Biaka from central Africa had a single admixture event ~1200 years ago, from other African group(s). #bog13
333223698708443136 May 11 10:14 @notSoJunkDNA Did Romans went to South Africa? @joe_pickrell is making the case with genetic data. #bog13
333224413346545665 May 11 10:17 @tuuliel Joe Pickrell" "I'm going to focus on this hypothesis because it's not insane" #bog13
333224457818738690 May 11 10:17 @notSoJunkDNA RT @tuuliel: Joe Pickrell" "I'm going to focus on this hypothesis because it's not insane" #bog13
333224695061176320 May 11 10:18 @ewanbirney About 1300 to 1500 years predicted European genetic input into southern Africa ... .?? Via east Africa? #bog13
333224988616318977 May 11 10:20 @ewanbirney East African populations have a European signature early (around 1000 BC) #bog13
333225148679331840 May 11 10:20 @GenomeNathan Pickrell: sAfr pops show at-first puzzling traces of wEurasian introgression ~1-5kya. Serial admixtures, via eAfr/Bantu exp., likely. #bog13
333225156233277440 May 11 10:20 @notSoJunkDNA JP: Data supporting a large movement from Western Asia to Eastern Africa around 1000BC and from eastern Af to southern Af ~500AD #bog13
333225279852003328 May 11 10:21 @ewanbirney I'd love to know how consistent or not this is with archeological finds in Africa. #bog13
333225488585736193 May 11 10:22 @Magda_Skipper Pickrell: west Eurasian admixture into S Africa throu migration into East Africa around 1000 BC, followed by migration south 500 AD #bog13
333225724766998528 May 11 10:22 @girlscientist Does not seem that the "one question per customer" rule applies to Carlos himself. But he & group organized great mtg so it's ok. :) #bog13
333225837220487168 May 11 10:23 @ewanbirney This whole field is genetics, archeology and "recent" history all fused together. A true multi disciplinary field. #bog13
333227402341777408 May 11 10:29 @lexnederbragt RT @homolog_us: Steven Salzberg at #bog13: Assembling 22Gb Conifer Genome (http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/)
333227403642028032 May 11 10:29 @JacobFDegner RT @obahcall: #bog13 Cheers to Joel Hirschhorn as he rotates off the organizing committee, Congratulating Molly Pzreworski for joining #bog14 organizers
333227420201136128 May 11 10:29 @casey6r0wn The ads on my #bog13 feed are now all for Advil. The Internet is so smart.
333228064274255872 May 11 10:32 @ToruOkada69 RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333229347211198464 May 11 10:37 @IGATechnology RT @vezzi84: De novo assembly of the 20 Gbp Norway spruce genome: today, poster 338 #bog13
333229482410377218 May 11 10:37 @nparmalee RT @tuuliel: Joe Pickrell" "I'm going to focus on this hypothesis because it's not insane" #bog13
333229757015670785 May 11 10:38 @DNADigest RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333230309317435395 May 11 10:41 @sebastiangood Brilliant! “@mucociliary: Population variant found on the lawn #bog13 http://t.co/8lBrHRKXzs”
333231586197774338 May 11 10:46 @drugmonkeyblog RT @sheacshl: This stance based on very old fashioned view of sci mtgs as secret conclaves. We fear what we don’t understand #bog13 @girlscientist
333231850560565248 May 11 10:47 @ewanbirney @joe_pickrell is there such a thing as a "good review article" on the history side ( I won't ask if its open access...) #bog13
333231952121430016 May 11 10:47 @notSoJunkDNA @GenomeNathan tweet able? I don't think so #bog13
333231958660370432 May 11 10:47 @girlscientist .@konrad_jk: need graph of human migration on next year's bingo card. #bog13
333232059520802816 May 11 10:48 @girlscientist Prob can't see in back but Kidd not tweetable; remainder of talks are. #bog13
333232480842817536 May 11 10:49 @Ubercoat Neat talks today, including ramifications of native/euro admixture in dif. latino populations, & migration back to Africa c. 1000 BCE #bog13
333233112144306176 May 11 10:52 @joe_pickrell @ewanbirney Thought-provoking review on eastern-southern Africa by a linguist [pdf] http://www.sahumanities.org.za/Uploads/e0b6c194-b40a-438b-bada-2b09c03caba2/guldemann%20final.pdf #bog13
333233162878599169 May 11 10:52 @ewanbirney RT @joe_pickrell: @ewanbirney Thought-provoking review on eastern-southern Africa by a linguist [pdf] http://www.sahumanities.org.za/Uploads/e0b6c194-b40a-438b-bada-2b09c03caba2/guldemann%20final.pdf #bog13
333235426099863552 May 11 11:01 @KevinADavies RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333236067895484417 May 11 11:04 @ewanbirney @tuuliel up at the #bog13 podium on functional variation on human populations - eQTLs as an intermediate phenotypes.
333236270333562880 May 11 11:04 @notSoJunkDNA Tuuli Lappalainen on the Geuvadis project. Genome meets Transcriptome http://www.geuvadis.org/web/geuvadis/RNAseq-project #bog13
333236380295639040 May 11 11:05 @vraggio RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333236534088200192 May 11 11:05 @girlscientist .@tuuliel using gene expression as an intermediate phenotype to understand how genomic variation leads to phenotypic variation. #bog13
333236731384061952 May 11 11:06 @GenomeNathan Lappalainen on how gene expression varies among human populations. Uniformly generated RNAseq data from 1 wAfr, 4 Eur populations. #bog13
333236823306420224 May 11 11:07 @notSoJunkDNA TL Higher proportion of splicing variation between YRI and other pop than within other european populations #bog13
333236940759502848 May 11 11:07 @Magda_Skipper TL: splicing variation disproportionately contributes to continental population differences #bog13
333237024305864705 May 11 11:07 @ewanbirney Splicing differences stronger than expression between populations. This surprises me. #bog13
333237116379230208 May 11 11:08 @girlscientist .@tuuliel: miRNA sequencing revealed that miRNAs affect mRNAs, AND the other way around too. #bog13
333237472282689536 May 11 11:09 @GenomeNathan Lappalainen findings: 1) Splicing varies greatly between wAfr & Eur. 2) miRNA and mRNA levels correlate, but variably #bog13
333237547578818560 May 11 11:09 @notSoJunkDNA . @tuuliel shows exon eQTL, transcript ration QTL, mirQTL, repeat eQTL and RNA edit QTL. Cool! #bog13
333237773827993600 May 11 11:10 @RobAboukhalil #bog13 twitter activity back up: http://www.technophilicmag.com/bog13/! Sorry for delay, server has not been cooperating.
333237788289941505 May 11 11:10 @notSoJunkDNA . @tuuliel now on Allele-specific expression (ASE) and transcript structure (ASTS). #bog13
333237947505709057 May 11 11:11 @drugmonkeyblog RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333238083321487361 May 11 11:12 @Magda_Skipper TL: allele specific expression is a strong genetic trait #bog13
333238106260127746 May 11 11:12 @ewanbirney This is a tour de force of eQTL analysis - I hope tuuli touches in the repeat eQTLs. Currently talking about allele specific effects #bog13
333238176451805187 May 11 11:12 @girlscientist .@tuuliel: Genetic effects on splicing no less important than genetic effects on expression levels. #bog13
333238223914532864 May 11 11:12 @GenomeNathan Lappalainen: Carefully probed (in hets vs. homs) cis-regulation of allele-specific expression. #bog13
333238341275353090 May 11 11:13 @cubismwonder RT @girlscientist: .@tuuliel: Genetic effects on splicing no less important than genetic effects on expression levels. #bog13
333238519034150913 May 11 11:13 @notSoJunkDNA @ewanbirney I want mirQTL! Looking forward to eating the papers. Great work! #bog13
333238536725741568 May 11 11:13 @joshwitten RT @girlscientist: .@tuuliel: Genetic effects on splicing no less important than genetic effects on expression levels. #bog13
333238799578578944 May 11 11:14 @notSoJunkDNA . @tuuliel how to discover causal regulatory variants and links to human disease? #bog13
333238850912661504 May 11 11:15 @Magda_Skipper TL: large-scale analysis further confirms that eQTLs often map to promoters, enhancers etc #bog13
333239024351318017 May 11 11:15 @hysell RT @notSoJunkDNA: Last session of #bog13. Getting ready for a series of jokes on coffee, late night and closed eyes in the back. #lame
333239206723846146 May 11 11:16 @Magda_Skipper Tl: The 1st eQTL variant is causal in 54%of the eQTL loci #bog13
333239967264407554 May 11 11:19 @Magda_Skipper TL: GWAS variant in eQTL is no guarantee that gene expression change underlies disease #bog13
333240104804024321 May 11 11:20 @genetisaur TL: important to keep in mind when GWAS hit is also eQTL-doesn't necessarily imply regulatory mechanism bc null overlap is high. #bog13
333240156389789696 May 11 11:20 @GenomeNathan @tuuliel: 1 in 6 GWAS hits is an eQTL. More than null-expected (1/9). Why? Disease may not always trace to expression diff. #bog13
333240322194821121 May 11 11:20 @girlscientist Nice job by @tuuliel of summarizing biological meaning from vast amounts of data. #bog13
333240629192699905 May 11 11:22 @GenomeNathan RT @girlscientist: Nice job by @tuuliel of summarizing biological meaning from vast amounts of data. #bog13
333241041660563456 May 11 11:23 @GenomeNathan Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333241309991157761 May 11 11:24 @ewanbirney RT @GenomeNathan: Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333241416232886274 May 11 11:25 @notSoJunkDNA Amy L. Williams A genome-wide estimate of meiotic gene conversion rate in humans #bog13
333241446150836224 May 11 11:25 @joe_pickrell RT @GenomeNathan: Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333241676363612160 May 11 11:26 @nparmalee Passing Cold Spring Harbor on the train. Hello #bog13 friends!
333241789005832194 May 11 11:26 @notSoJunkDNA RT @nparmalee: Passing Cold Spring Harbor on the train. Hello #bog13 friends!
333242090421112832 May 11 11:28 @GenomeNathan Williams on estimating meiotic gene conversion rates, tract lengths, & spatial/sex variation. #bog13
333242093722009601 May 11 11:28 @jcbarret RT @GenomeNathan: Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333242165226508288 May 11 11:28 @cshperspectives RT @GenomeNathan: Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333242302808080384 May 11 11:28 @psudmant #BOG13 - would prefer if people referenced SEX instead of GENDER in these talks. X/Y chromosomes dictate your sex, not your gender.
333242528956551168 May 11 11:29 @nextgenseek RT @GenomeNathan: Lappalainen: Carefully probed (in hets vs. homs) cis-regulation of allele-specific expression. #bog13
333242632438427649 May 11 11:30 @nextgenseek RT @notSoJunkDNA: . @tuuliel shows exon eQTL, transcript ration QTL, mirQTL, repeat eQTL and RNA edit QTL. Cool! #bog13
333242732430643200 May 11 11:30 @GenomeNathan Williams uses chips to estimate per-site/meiosis gene conv. rates. [Presumes that easily-typed chip sites represent genome well...]. #bog13
333243344203440128 May 11 11:32 @GenomeNathan Williams: Confirm putative germline conversions (vs. genotype errors) by tracking transmission to grandkids in pedigrees. #bog13
333243500386713600 May 11 11:33 @genetisaur AW: more gene conversion in males near telomeres, consistent with crossover data. #bog13
333243617877569538 May 11 11:34 @girlscientist In contrast, Amy Williams says rate for gene conversion events = 7.46X10-6 per bp per generation. [Caution: small n.] #bog13
333243653164240896 May 11 11:34 @kayellbe Gene conversion talk by @amythewilliams for the win: clear introduction, method description & cautious validation. #scienceitworks #bog13
333243789646901252 May 11 11:34 @kayellbe RT @psudmant: #BOG13 - would prefer if people referenced SEX instead of GENDER in these talks. X/Y chromosomes dictate your sex, not your gender.
333244121802215426 May 11 11:36 @genetisaur AW: huge enrichment in gene conversion in hot spots (10 cM/Mb+). #bog13
333244219437244417 May 11 11:36 @GenomeNathan Williams: eggs may carry more gene conversions than sperm (accords known crossover disparity). #bog13
333244588674400256 May 11 11:37 @ElementoLab RT @notSoJunkDNA: Tuuli Lappalainen on the Geuvadis project. Genome meets Transcriptome http://www.geuvadis.org/web/geuvadis/RNAseq-project #bog13
333244795726204931 May 11 11:38 @johnpharmd RT @GenomeNathan: Williams: eggs may carry more gene conversions than sperm (accords known crossover disparity). #bog13
333244832791281664 May 11 11:38 @kayellbe AW research w/San Antonio pedigrees: http://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs000462.v1.p1. Data collected for T2 diabetes -> insight on basic biology of meiosis. #bog13
333244982825721856 May 11 11:39 @LaoSaal RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333245676588765184 May 11 11:42 @tuuliel RT @GenomeNathan: Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333246272670679042 May 11 11:44 @kayellbe Jesse Shapiro wrapping it all up at #bog13 with viral hemorrhagic fevers.
333246760820568066 May 11 11:46 @kayellbe .@bjesseshapiro tells us we should be more concerned with Lassa than Ebola. Why? 1000 cases EVER vs. 1000 casese PER YEAR #bog13
333246803300458497 May 11 11:46 @girlscientist Last speaker of #bog13, Benjamin Shapiro, wants to tell us why we should be worrying about Lassa fever and not just Ebola. Great.
333246843632885761 May 11 11:46 @Magda_Skipper Shapiro: Lassa virus as deadly as Ebola; without treatment it kills within 2 weeks #bog13
333246847105761281 May 11 11:46 @ewanbirney Last talk Shapiro - on African viruses hemorragic fever genetics. - focusing on Lassa virus. 1000 cases/year. Scary photo. #bog13
333247111497932800 May 11 11:47 @girlscientist But @bjesseshapiro gets extra points for his "Severely Infected by Science" t-shirt. #bog13
333247186051674112 May 11 11:48 @ewanbirney Lassa virus has an endemic carrier in a (certain type of) mouse. Lives in houses. #bog13
333247231236902913 May 11 11:48 @Magda_Skipper Shapiro: the largest catalogue to date of any BL-4 genome #bog13
333247319816421377 May 11 11:48 @notSoJunkDNA RT @girlscientist: But @bjesseshapiro gets extra points for his "Severely Infected by Science" t-shirt. #bog13
333247417757622272 May 11 11:49 @GenomeNathan Shapiro rounds out #bog13 with a not-at-all sobering talk on the decidedly uncharismatic Lassa virus.
333247698427838465 May 11 11:50 @GenomeNathan Shapiro: Why is Lassa deadlier in Sierra Leone than Nigeria? #bog13
333247725162360832 May 11 11:50 @girlscientist .@bjesseshapiro: Lassa much more deadly in Sierra Leone than Nigeria. Why? #bog13
333247935519277057 May 11 11:51 @anderson_carl Oh no, Shapiro puts that terrifying picture back up. And with lunch on the horizon… #bog13
333248187940888577 May 11 11:52 @ewanbirney Lassa viruses only has 4 genes - and yet deadly. #bog13
333248211982622720 May 11 11:52 @bjovicic RT @SBGenomics: Showing divergence in SNP/indel calls among analysis pipelines (from lib prep to VCF processing) poster 367 #bog13 http://t.co/jJnroXLYWt
333248220291534848 May 11 11:52 @Magda_Skipper Shapiro: Sequence Lassa from 100 patent sand 5 rodents from Nigeria and Sierra Leone to get Lassa phylogeny and geo distribution #bog13
333248261550923776 May 11 11:52 @kayellbe Unbiased sequencing of RNA from Lassa patient blood yields 1000X coverage of Lassa genome @bjesseshapiro #bog13
333248485933596672 May 11 11:53 @ewanbirney Lassa most recent common ancestor ~1000 years ago, likely Nigeria, not west coast Africa. #bog13
333248492938096640 May 11 11:53 @Magda_Skipper Shapiro: Lassa has been circulating in Nigeria but only recently spread to Sierra Leone; this is where it is more lethal #bog13
333248522327584768 May 11 11:53 @girlscientist .@bjesseshapiro: Lassa virus much more recent spread into Sierra Leone than Nigeria, suggesting picked up virulence over time. #bog13
333248695216787458 May 11 11:54 @GenomeNathan Shapiro: build Lassa phylogeny from strains carried by human patients & mice. Look for more lethal clade(s). #bog13
333248834383781888 May 11 11:54 @johnhawks RT @joe_pickrell: Siepel: lovely plot showing decrease in mean tMRCA near genes #bog13
333248835663044609 May 11 11:54 @GenomeNathan RT @ewanbirney: Lassa most recent common ancestor ~1000 years ago, likely Nigeria, not west coast Africa. #bog13
333248856148033536 May 11 11:54 @GenomeNathan RT @ewanbirney: Lassa viruses only has 4 genes - and yet deadly. #bog13
333249106245996545 May 11 11:55 @girlscientist Shapiro: Lassa virus has used codon adaptation to its host to be more lethal in humans, and in Sierra Leone. Not scary or anything. #bog13
333249168476876803 May 11 11:56 @napickles RT @ewanbirney: Lassa viruses only has 4 genes - and yet deadly. #bog13
333249288282963969 May 11 11:56 @johnpharmd RT @GenomeNathan: Shapiro: build Lassa phylogeny from strains carried by human patients & mice. Look for more lethal clade(s). #bog13
333249322734997504 May 11 11:56 @Magda_Skipper Shapiro: a burst of codpn adaptation in Lassa from Sierra Leone; patients from SL carry more copies of Lassa genome #bog13
333249408537874432 May 11 11:57 @tuuliel Shapiro: Spear of Lassa virus from Nigeria to Sierra Leone: higher codon adaptation potentially causing increased virulence? #bog13
333249439886090241 May 11 11:57 @kayellbe Research graphically affecting human health upsets #bog13 tweetome. Audience with ability to attain MD or PhD opts for latter. Coincidence?
333249760418996227 May 11 11:58 @Magda_Skipper Shapiro: identify intrahost genetic diversit; greater diversity on rodents which are chronic carriers #bog13
333250254881312770 May 11 12:00 @drricky RT @ewanbirney: Lassa viruses only has 4 genes - and yet deadly. #bog13
333250551942897664 May 11 12:01 @homolog_us Would anyone be able to email me a list of abstracts for #bog13? Can't find it on their website.
333250740401369089 May 11 12:02 @Magda_Skipper Shapiro: excess of intrahost nonsynonymous changes in GPC( looks like host drives within host diversification #bog13
333250922690011137 May 11 12:03 @GenomeNathan Shapiro: Lassa MK tests suggest diversifying selection within hosts, purifying between hosts. Signal strong in surface proteins. #bog13
333251188826988545 May 11 12:04 @ewanbirney Drum roll. That's it for #bog13 ... Great talks, great posters, great conversations. Thanks to everyone who came; hope see y'all #bog14
333251379751682050 May 11 12:04 @GenomeNathan Q: Could Sierra Leone-Nigeria death disparity instead reflect broader healthcare disparities? Shapiro A: Yes. #bog13
333251411938787328 May 11 12:05 @Magda_Skipper RT @ewanbirney: Drum roll. That's it for #bog13 ... Great talks, great posters, great conversations. Thanks to everyone who came; hope see y'all #bog14
333251440657174528 May 11 12:05 @Ubercoat Very nice talk by Jesse Shapiro on Lassa virus. Strangely, it became MORE deadly as it spread; unclear if that'll be sustained #bog13
333251487234924544 May 11 12:05 @RobAboukhalil RT @ewanbirney: Drum roll. That's it for #bog13 ... Great talks, great posters, great conversations. Thanks to everyone who came; hope see y'all #bog14
333251519921135616 May 11 12:05 @notSoJunkDNA The #bog13 effect. 168 tweets, 42 additional followers. Great conference, thanks everybody! http://yfrog.com/obqylojj http://yfrog.com/odmt7qjj
333251539999277056 May 11 12:05 @girlscientist Thanks twitter for following #bog13 along with us. Great meeting as usual!
333251556294152194 May 11 12:05 @tuuliel Done with the talks, including mine. What an awesome meeting, as always. #bog13
333252358534463489 May 11 12:08 @johnpharmd RT @GenomeNathan: Q: Could Sierra Leone-Nigeria death disparity instead reflect broader healthcare disparities? Shapiro A: Yes. #bog13
333252603473436673 May 11 12:09 @Ubercoat By my count (inc. 4 panelists and 2 keynotes), there were 62 talks, 19 by women - same rate as female attendance (31%). Intentional? #bog13
333253204928245761 May 11 12:12 @Graham_Coop RT @notSoJunkDNA: Amy L. Williams A genome-wide estimate of meiotic gene conversion rate in humans #bog13
333253773201915906 May 11 12:14 @evolvability RT @ewanbirney: Drum roll. That's it for #bog13 ... Great talks, great posters, great conversations. Thanks to everyone who came; hope see y'all #bog14
333256824054755329 May 11 12:26 @OmicsOmicsBlog RT @ewanbirney: Lassa viruses only has 4 genes - and yet deadly. #bog13
333256878022881280 May 11 12:26 @bryan_howie Awesome! MT @girlscientist Last morning of #bog13. Molly Pzreworski will be one of organizers for the next 4 years; congrats Molly!
333257765671796736 May 11 12:30 @dghaem RT @ewanbirney: Lassa viruses only has 4 genes - and yet deadly. #bog13
333260309651394560 May 11 12:40 @dambrodebarcola RT @ewanbirney: Splicing differences stronger than expression between populations. This surprises me. #bog13
333262345763696641 May 11 12:48 @AlexAlexAlex184 RT @ewanbirney: Cool. Pine nuts have haploid DNA. Who knew ... But can only pick one nut (due to recombination) #bog13
333264159485607936 May 11 12:55 @mortm RT @ewanbirney: Splicing differences stronger than expression between populations. This surprises me. #bog13
333265078910607361 May 11 12:59 @assemblathon Steven Salzberg at #bog13: Assembling 22Gb Conifer Genome http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/ (via @homolog_us)
333268567447445505 May 11 13:13 @Jeggog RT @ewanbirney: Drum roll. That's it for #bog13 ... Great talks, great posters, great conversations. Thanks to everyone who came; hope see y'all #bog14
333268700608200707 May 11 13:13 @Jeggog RT @ewanbirney: Lassa viruses only has 4 genes - and yet deadly. #bog13
333268713916731392 May 11 13:13 @Jeggog RT @ewanbirney: Lassa most recent common ancestor ~1000 years ago, likely Nigeria, not west coast Africa. #bog13
333268756996431874 May 11 13:13 @EduEyras RT @ewanbirney: Splicing differences stronger than expression between populations. This surprises me. #bog13
333268987993538561 May 11 13:14 @EduEyras RT @girlscientist: .@tuuliel: Genetic effects on splicing no less important than genetic effects on expression levels. #bog13
333269222199267328 May 11 13:15 @EduEyras RT @notSoJunkDNA: The #bog13 effect. 168 tweets, 42 additional followers. Great conference, thanks everybody! http://yfrog.com/obqylojj http://t.co/QpzaeoNOA5
333269469994565635 May 11 13:16 @CampOther RT @girlscientist: Last speaker of #bog13, Benjamin Shapiro, wants to tell us why we should be worrying about Lassa fever and not just Ebola. Great.
333269545408151553 May 11 13:17 @adamauton RT @girlscientist: Last morning of #bog13. Molly Pzreworski will be one of organizers for the next 4 years; congrats Molly! Popgen will not be in Sat in 2014.
333270549155430400 May 11 13:21 @adamauton Great meeting #bog13. See you at #bog14!
333271122617434114 May 11 13:23 @mcaccamo RT @ewanbirney: Lassa viruses only has 4 genes - and yet deadly. #bog13
333275664419528705 May 11 13:41 @pvanheus RT @ewanbirney: East African populations have a European signature early (around 1000 BC) #bog13
333275879117561856 May 11 13:42 @pvanheus Me too! RT @ewanbirney: I'd love to know how consistent or not this is with archeological finds in Africa. #bog13
333276075809443841 May 11 13:43 @pvanheus RT @ewanbirney: This whole field is genetics, archeology and "recent" history all fused together. A true multi disciplinary field. #bog13
333280716248989698 May 11 14:01 @suganthibala RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333281003357491200 May 11 14:02 @PavelTomancak @ewanbirney @leonidkruglyak @notSoJunkDNA thanks for tweets from #BOG13 - almost like being there.
333281444380164096 May 11 14:04 @konrad_jk Great #bog13 this year! Lots of good science, good people, good bingo. Looking forward to next year!
333281666447589376 May 11 14:05 @DNAmlin RT @PavelTomancak: @ewanbirney @leonidkruglyak @notSoJunkDNA thanks for tweets from #BOG13 - almost like being there.
333287512850178049 May 11 14:28 @DNADigest RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333289099496652802 May 11 14:34 @cdbustamante RT @GenomeNathan: Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333293964318871554 May 11 14:54 @Guillaumejospin RT @assemblathon: Steven Salzberg at #bog13: Assembling 22Gb Conifer Genome http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/ (via @homolog_us)
333299014634192896 May 11 15:14 @ngsgene Yay! MT @bryan_howie @girlscientist #bog13 Molly Pzreworski will be one of organizers for next 4 years; congrats Molly! #bioinformatics
333301663400071168 May 11 15:24 @SunWeight RT @sheacshl: This stance based on very old fashioned view of sci mtgs as secret conclaves. We fear what we don’t understand #bog13 @girlscientist
333301903909847040 May 11 15:25 @RobAboukhalil RT @sheacshl: This stance based on very old fashioned view of sci mtgs as secret conclaves. We fear what we don’t understand #bog13 @girlscientist
333302282399653888 May 11 15:27 @CMDooley77 RT @Magda_Skipper: TL: splicing variation disproportionately contributes to continental population differences #bog13
333302323495452672 May 11 15:27 @RongChenBioinfo RT @sheacshl: This stance based on very old fashioned view of sci mtgs as secret conclaves. We fear what we don’t understand #bog13 @girlscientist
333307293422723072 May 11 15:47 @DanielCanueto RT @girlscientist: .@tuuliel: miRNA sequencing revealed that miRNAs affect mRNAs, AND the other way around too. #bog13
333311094590410754 May 11 16:02 @jcbarret End of amazing #bog13. Anybody looking for UK genomics postdoc (after all the ads from speakers!) we're hiring too: http://bit.ly/15ztFWr
333314877428994050 May 11 16:17 @nextgenseek RT @jcbarret: End of amazing #bog13. Anybody looking for UK genomics postdoc (after all the ads from speakers!) we're hiring too: http://t.co/jaFrRY2u9W
333316493574017026 May 11 16:23 @razibkhan RT @jcbarret: End of amazing #bog13. Anybody looking for UK genomics postdoc (after all the ads from speakers!) we're hiring too: http://t.co/jaFrRY2u9W
333322348621094912 May 11 16:46 @cdbustamante Thrilled with all the activity at #bog13. Thanks to all for making this a great meeting and looking forward to #bog14.
333323368025694208 May 11 16:50 @Graham_Coop RT @cdbustamante: Thrilled with all the activity at #bog13. Thanks to all for making this a great meeting and looking forward to #bog14.
333323674608361474 May 11 16:52 @Graham_Coop @cdbustamante have been glued to #bog13, congrats on a great meeting. Will likely go to #bog14
333324589126004737 May 11 16:55 @nextgenseek RT @GenomeNathan: Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333325645381771264 May 11 17:00 @notSoJunkDNA RT @cdbustamante: Thrilled with all the activity at #bog13. Thanks to all for making this a great meeting and looking forward to #bog14.
333329626971664385 May 11 17:15 @reeds_t .@twitter indicates the talk went well @bjesseshapiro @pardissabeti Congrats! #bog13 #Lassa #SierraLeone #Nigeria
333332115859058689 May 11 17:25 @AWRgenes RT @jcbarret: End of amazing #bog13. Anybody looking for UK genomics postdoc (after all the ads from speakers!) we're hiring too: http://t.co/jaFrRY2u9W
333333269263290369 May 11 17:30 @socalsysbio RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333334264491933696 May 11 17:34 @ErichMSchwarz @ewanbirney #bog13 It's consistent with Greco-Romans having known how to sail to "Rhaphta" (~Dar es Salaam). See: https://en.wikipedia.org/wiki/Periplus_of_the_Erythraean_Sea
333345196861427713 May 11 18:17 @smithmkt RT @ewanbirney: Getting ready for the schlep across the pond for biology of genomes 2013 (#bog13). This is my favourite meeting of the year.
333345813176664066 May 11 18:20 @smithmkt RT @cdbustamante: Thrilled with all the activity at #bog13. Thanks to all for making this a great meeting and looking forward to #bog14.
333349538742026240 May 11 18:34 @watsonhaigh RT @assemblathon: Steven Salzberg at #bog13: Assembling 22Gb Conifer Genome http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/ (via @homolog_us)
333374080189337602 May 11 20:12 @ewanbirney RT @ErichMSchwarz: @ewanbirney #bog13 It's consistent with Greco-Romans having known how to sail to "Rhaphta" (~Dar es Salaam). See: https://t.co/RKmG8HfvWo
333379951334141953 May 11 20:35 @juansearch RT @GenomeNathan: Science trumps coffee for @cdbustamante & @joe_pickrell. #bog13 http://t.co/ZJnivXtBBE
333431533983641600 May 12 00:00 @RobAboukhalil @bjesseshapiro @StefanieButland @bffo Awesome talk today at #bog13, good luck with your new lab @ UdeM!
333440874061119489 May 12 00:37 @vezzi84 RT @assemblathon: Steven Salzberg at #bog13: Assembling 22Gb Conifer Genome http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/ (via @homolog_us)
333451501991235584 May 12 01:20 @pop_gen_JED You know #bog13 is a big deal when it brings @cdbustamante out of Twitter hibernation! ;-)
333467276193964032 May 12 02:22 @YupengHe RT @erlichya: Based on all tweets from #BOG13 - the most popular term so far is *Enhancers*. Just for comparison #ASHG12 was "data" http://t.co/Aa31ltKlCV
333472591362797569 May 12 02:43 @antonio_marco_c RT @GenomeNathan: Genetic privacy is apparently big among Neandertals. Pääbo and Castellano both ban tweeting. #bog13
333485891207180288 May 12 03:36 @cntalavera RT @assemblathon: Steven Salzberg at #bog13: Assembling 22Gb Conifer Genome http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/ (via @homolog_us)
333502276826173440 May 12 04:41 @annekeluc RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
333528451086680064 May 12 06:25 @SeqComplete buzz- The Biology of Genomes #bog13 is out! http://paper.li/SeqComplete/1363021264 ▸ Top stories today via @vezzi84 @annekeluc
333563396530270208 May 12 08:44 @razZ0r RSS "Steven Salzberg at #bog13: Assemblin... http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/
333586606512562176 May 12 10:16 @GenomeNathan @notSoJunkDNA @leonidkruglyak One last [warm/rainy] Spring Harborside image from an awesome #bog13. Here's to #bog14! http://t.co/LljJUOnsRD
333594351231959041 May 12 10:47 @cdbustamante Thanks @joe_pickrell for a fascinating talk and @GenomeNathan for a great photo... #bog13... http://t.co/GjGTjLIaVY
333596085371154432 May 12 10:54 @bffo Happy 2 hear @bjesseshapiro did "Awesome talk @ #bog13" He now has a new lab @BiologieUdeM | was in my lab many years ago via @RobAboukhalil
333598884305707010 May 12 11:05 @tomasz_puton After following the #bog13 stream for the last couple of days, I am convinced to participate in The Biology of Genomes conf next year!
333604042376888320 May 12 11:26 @joe_pickrell RT @cdbustamante: Thanks @joe_pickrell for a fascinating talk and @GenomeNathan for a great photo... #bog13... http://t.co/GjGTjLIaVY
333611544418078720 May 12 11:56 @pauldennyuk RT @klmr: At #bog13, @leonidkruglyak does it right: puts acknowledgements at the beginning rather than the end. http://buff.ly/10nwZLi
333630386259238912 May 12 13:10 @robin_andersson Back home after an awesome #bog13 meeting! Great science overall and great feedback on my talk.
333634363960999936 May 12 13:26 @FriedaMiller RT @bffo: Happy 2 hear @bjesseshapiro did "Awesome talk @ #bog13" He now has a new lab @BiologieUdeM | was in my lab many years ago via @RobAboukhalil
333647523568820224 May 12 14:19 @razZ0r RT @ewanbirney: Splicing differences stronger than expression between populations. This surprises me. #bog13
333647721611280385 May 12 14:19 @razZ0r RT @girlscientist: .@tuuliel: Genetic effects on splicing no less important than genetic effects on expression levels. #bog13
333652370653323265 May 12 14:38 @Graham_Coop RT @cdbustamante: Thanks @joe_pickrell for a fascinating talk and @GenomeNathan for a great photo... #bog13... http://t.co/GjGTjLIaVY
333664254416801793 May 12 15:25 @athmapai exhausted but had an awesome time discussing new thoughts with old collabs and old interests with new friends at #bog13
333695659456753666 May 12 17:30 @BlueSEQ Our #Bog13 archive is here http://ngs.is/10qSBYj Also see Google doc version from @erlichya: http://bit.ly/15BR1KP
333712150600237057 May 12 18:35 @FriedaMiller RT @Magda_Skipper: Shapiro: Lassa virus as deadly as Ebola; without treatment it kills within 2 weeks #bog13
333746471461593089 May 12 20:52 @obahcall RT @cdbustamante: Thrilled with all the activity at #bog13. Thanks to all for making this a great meeting and looking forward to #bog14.
333803764102344705 May 13 00:39 @gerlach_d RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333860137775267841 May 13 04:23 @RongChenBioinfo RT @erlichya: Enhancers and variants are key terms in #BoG13 (based on text analysis of 2140 tweets). Did someone say eQTL? http://t.co/Vf3ZFeulP8
333884738836262912 May 13 06:01 @SeqComplete buzz- The Biology of Genomes #bog13 is out! http://paper.li/SeqComplete/1363021264 ▸ Top stories today via @MIGUELVAZQUEZ30
333918647066189824 May 13 08:16 @nextgenseek @girlscientist @erlichya nice. this is how it looked before #bog13 started :) https://twitter.com/nextgenseek/status/331699286213550080
333960938761895936 May 13 11:04 @Konstance_Kar RT @ewanbirney: Lassa viruses only has 4 genes - and yet deadly. #bog13
334010241731665921 May 13 14:20 @homolog_us #bog13 Posters on Pine and Coelacanth (http://www.homolog.us/blogs/2013/05/13/bog13-posters-on-pine-and-coelacanth/)
334023064167776258 May 13 15:11 @je_mclaughlin RT @leonidkruglyak: From last night's keynote: this is what a hard-to-find Mendelian disease gene looks like: http://1.usa.gov/ZPNpxc #bog13
334024979693834241 May 13 15:18 @bffo RT @yeastgenome: An SGD blog post on single cell gene expression in yeast that might be of interest to #bog13 http://www.yeastgenome.org/keeping-the-noise-down
334029272152932352 May 13 15:35 @pop_gen_JED Catching up on #bog13 videos.
334066019515629570 May 13 18:02 @SahaSurya PM @homolog_us @StevenSalzberg1 at #bog13: Assembling 22Gb Conifer Genome (http://www.homolog.us/blogs/2013/05/11/steven-salzberg-at-bog13-assembling-22gb-conifer-genome/ …) #NGS #bioinformatics
334114719529058304 May 13 21:15 @notSoJunkDNA @prcote also comes with serious ethical concerns (as discussed last week in the ethical panel of #bog13)
334123821609140225 May 13 21:51 @GholsonLyon @partha_mitra @WiringTheBrain @edyong209 Yeah, well, you were lucky to miss the "Non-Invasive Prenatal Diagnosis" session at #bog13. :(
334247123476443137 May 14 06:01 @SeqComplete buzz- The Biology of Genomes #bog13 is out! http://paper.li/SeqComplete/1363021264 ▸ Top stories today via @SahaSurya
334262622952255489 May 14 07:03 @nextgenseek Large Scale Genetics of Human Gene Expression Studies Turn To Next-Gen Sequencing http://nextgenseek.com/2013/05/large-scale-genetics-of-human-gene-expression-studies-turn-to-next-gen-sequencing/#.UZIZkEoOTC8.twitter #bog13 #rna-seq #ngs
334263231784833024 May 14 07:05 @nextgenseek Large-scale RNA-seq study to understand the genetics of gene expression in human #bog13 http://sfy.co/aIq3 #storify #bog13
334263232011309056 May 14 07:05 @nextgenseek @bullymom2 @notSoJunkDNA storified "Large-scale RNA-seq study to understand the genetics of gene expression #bog13" http://sfy.co/aIq3
334263232330084352 May 14 07:05 @nextgenseek @ewanbirney @girlscientist storified "Large-scale RNA-seq study to understand the genetics of gene expression #bog13" http://sfy.co/aIq3
334263232342667265 May 14 07:05 @nextgenseek @kayellbe storified "Large-scale RNA-seq study to understand the genetics of gene expression #bog13" http://sfy.co/aIq3
334263232397185024 May 14 07:05 @nextgenseek @GenomeNathan @jcbarret storified "Large-scale RNA-seq study to understand the genetics of gene expression #bog13" http://sfy.co/aIq3
334313667967463424 May 14 10:26 @cshlmeetings RT @bryan_howie: Awesome! MT @girlscientist Last morning of #bog13. Molly Pzreworski will be one of organizers for the next 4 years; congrats Molly!
334313765984153600 May 14 10:26 @cshlmeetings RT @cdbustamante: Thrilled with all the activity at #bog13. Thanks to all for making this a great meeting and looking forward to #bog14.
334313784640421890 May 14 10:26 @cshlmeetings RT @Graham_Coop: @cdbustamante have been glued to #bog13, congrats on a great meeting. Will likely go to #bog14
334313947295518720 May 14 10:27 @cshlmeetings RT @tomasz_puton: After following the #bog13 stream for the last couple of days, I am convinced to participate in The Biology of Genomes conf next year!
334328215562756100 May 14 11:23 @DNAmlin RT @nextgenseek: Large Scale Genetics of Human Gene Expression Studies Turn To Next-Gen Sequencing http://nextgenseek.com/2013/05/large-scale-genetics-of-human-gene-expression-studies-turn-to-next-gen-sequencing/#.UZIZkEoOTC8.twitter #bog13 #rna-seq #ngs
334369156629684224 May 14 14:06 @aaronquinlan Add MS Clippy to any website. @mike_schatz - another Easter Egg per the SW "enhancements" we discussed at #bog13? https://www.smore.com/clippy-js
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