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ResisTB_mapping_DMM3.txt
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ResisTB_mapping_DMM3.txt
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SampleID SampleID2 LinkerPrimerSequence Primer_Plate Host Amp_Well_Plate MSQ LANE PI SubjID SampleType Phenotype Phenotype_c LTBI_status Date.of.Birth age_c age. age_ Age AM_15 Age_matched_15 years Age_matched_3 years AM_3 Sex Ethnicity Black.Ethnic.Group Alcohol frequent.do.you.drink Smoking Recreational.substances how.frequently.Recreational.substances Income.Range Field_site_c Field_site household.TB.contact Household.contact.TB.treatment Household.contact.TB.treatment.duration HIV.Status? Diagnosed.with.HIV inititated.on.ARV ARV.duration ARV.Group.1 ARV.Group.2 ARV.Group.3 CD4.count. current_CD4_count Current.CD4.count What was your last VL? When was the VL done? When.was.your.last.CD4.taken? TST.done.in.the.last.three.years INH.prophylaxis. INH.prophylaxis.duration current.INH.prophylaxis Cotrimoxazole.prophylaxis. Bmi BMI Date.TST.read TST.result.in.millimeters.(mm)_1 TST_group igra_tb_ag1_nil_1st igra_tb_ag2_nil_1st igra_tb_ag1_2nd igra_tb_ag2_2nd IGRA_1_average IGRA_2_average IGRA_overall IGRA_group Final.TST.result_1 Final.IGRA.Result_1 Final.IGRA.Result_2 Final.IGRA.Result_3 Description Shannon Observed Simpson Read_count DMM_pruned99 DMM_unpruned DMM_pruned1329 DMM_pruned
2RTB0029 2RTB0029 CCGGACTACHVGGGTWTCTAAT 3 Human 219,1 NSQ108 XXX South Africa 2RTB0029 stool ITN 2 LTBI- 10/1/74 2 above 35-60 40 1 S n.a 0 Female African_black Xhosa No n.a No No n.a R0-R3000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2012 2011/02/11 More_than_1_year TDF FTC EFV 40835 Below_463 434 LDL 42594 2/20/13 Unknown No n.a No No above_29.08 29,38 10/20/17 0 below -0,04 0,01 0,01 0,06 -0,015 0,035 0,01 below Negative Negative Negative Negative Negative 2,889748694 70 0,899838565 22243 C2 Streptococcus 2 2
2RTB0150 2RTB0150 CCGGACTACHVGGGTWTCTAAT 3 Human 219,2 NSQ108 XXX South Africa 2RTB0150 stool ITP 1 LTBI+ 7/16/64 2 above 35-60 52 1 A A 1 Female African_black Xhosa No n.a n.a No n.a R0-R3000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2010 5/24/11 More_than_1_year TDF FTC EFV 40670 Below_463 378 LDL 42787 2006/11/14 Yes Yes 12_months No No above_29.08 30,47 12/13/17 20 above 8,02 8,4 8,19 8,57 8,21 8,38 8,3 above Positive Positive Positive n.a Positive 2,941883521 78 0,897070744 19096 C2 Streptococcus 2 2
2RTB0188 2RTB0188 CCGGACTACHVGGGTWTCTAAT 3 Human 219,3 NSQ108 XXX South Africa 2RTB0188 stool ITP 1 LTBI+ 8/22/81 2 above 35-60 35 1 B B 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2011 7/15/11 More_than_1_year TDF FTC EFV 40739 Below_463 368 LDL 42860 2007/08/12 No Yes 12_months No No above_29.08 32,51 8/14/17 16 above 1,3 1,22 1,59 1,51 1,26 1,55 1,41 above Positive Positive Positive n.a Positive 3,350408737 125 0,90323874 22716 C2 Streptococcus 2 2
2RTB0215 2RTB0215 CCGGACTACHVGGGTWTCTAAT 3 Human 219,4 NSQ108 XXX South Africa 2RTB0215 stool ITP 1 LTBI+ 7/22/78 2 above 35-60 38 1 C C 1 Female African_black Xhosa Yes Occasionally No No n.a R3000-R5000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2001 4/25/04 More_than_1_year TDF FTC EFV 37089 Below_463 376 <20 42830 4/28/13 No Yes 36_months No Yes above_29.08 37,18 2/21/18 18 above 0,46 0,12 0,54 0,2 0,29 0,37 0,33 below Positive Positive Positive n.a Positive 3,996734776 237 0,963307259 88724 C2 Streptococcus 2 2
2RTB0237 2RTB0237 CCGGACTACHVGGGTWTCTAAT 3 Human 219,5 NSQ108 XXX South Africa 2RTB0237 stool ITN 2 LTBI- 12/10/76 2 above 35-60 40 1 T n.a 0 Female African_black Xhosa No n.a No No n.a Above R5000 5 DuNoon_CDC Yes Yes 2-6 months Positive_confirmed 2010 1/26/11 More_than_1_year TDF 3TC NVP 40409 Below_463 394 <20 42912 2002/07/17 No Yes 12_months No Yes below_29.08 25,51 10/27/17 0 below -0,02 0,05 0,15 0,22 0,015 0,185 0,1 below Negative Negative Negative Negative Negative 3,340980246 127 0,905386327 25638 C2 Streptococcus 2 2
2RTB0238 2RTB0238 CCGGACTACHVGGGTWTCTAAT 3 Human 219,6 NSQ108 XXX South Africa 2RTB0238 stool ITN 2 LTBI- 11/25/69 2 above 35-60 47 1 B D 1 Female African_black Other Yes Once a week No No n.a R3000-R5000 5 DuNoon_CDC No n.a n.a Positive_confirmed 2013 8/31/12 More_than_1_year TDF FTC EFV 41152 Below_463 372 <20 42912 1/31/17 No Yes 12_months No Yes above_29.08 32,45 10/27/17 0 below -0,02 0 0,27 0,29 -0,01 0,28 0,14 below Negative Negative Negative Negative Negative 3,41066993 117 0,912933688 23329 C2 Streptococcus 2 2
2RTB0239 2RTB0239 CCGGACTACHVGGGTWTCTAAT 3 Human 219,7 NSQ108 XXX South Africa 2RTB0239 stool ITP 1 LTBI+ 6/8/68 2 above 35-60 48 1 D D 1 Female African_black Xhosa No n.a No No n.a R3000-R5000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2013 3/18/13 More_than_1_year TDF FTC EFV 41341 Below_463 301 LDL 42853 9/14/14 No Yes other No No above_29.08 40,22 10/24/17 18 above 0,3 0,53 0,43 0,66 0,415 0,545 0,48 above Positive Positive Positive n.a Positive 3,682628269 116 0,954315707 23117 C2 Streptococcus 2 2
2RTB0271 2RTB0271 CCGGACTACHVGGGTWTCTAAT 3 Human 219,8 NSQ108 XXX South Africa 2RTB0271 stool ITN 2 LTBI- 2/17/78 2 above 35-60 39 1 A C 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 5 DuNoon_CDC No n.a n.a Positive_confirmed 2007 4/21/10 More_than_1_year TDF FTC EFV 40239 above_463 754 Ldl 42947 2005/01/17 No Yes 12_months No No above_29.08 34,72 12/14/17 0 below 0,02 0 0,09 0,07 0,01 0,08 0,05 below Negative Negative Negative Negative Negative 2,203798257 72 0,726746041 22232 C2 Streptococcus 2 2
2RTB0277 2RTB0277 CCGGACTACHVGGGTWTCTAAT 3 Human 219,9 NSQ108 XXX South Africa 2RTB0277 stool ITN 2 LTBI- 3/19/79 2 above 35-60 38 1 G B 1 Female African_black Xhosa No n.a No Yes Occasionally R0-R3000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2009 2012/11/08 More_than_1_year TDF FTC EFV 39708 above_463 705 LDL 42621 2012/04/13 No Yes other Yes No below_29.08 18,42 2003/08/19 0 below 0,02 0,02 0,1 0,1 0,02 0,1 0,06 below Negative Negative Negative Negative Negative 3,728793715 149 0,952866033 28491 C2 Streptococcus 2 2
2RTB0302 2RTB0302 CCGGACTACHVGGGTWTCTAAT 3 Human 219,1 NSQ108 XXX South Africa 2RTB0302 stool ITP 1 LTBI+ 11/23/98 1 below 18-25 19 1 E E 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2016 2005/02/16 More_than_1_year TDF FTC EFV 42486 Below_463 403 Ldl 42927 4/22/17 No No n.a No No below_29.08 27,89 7/17/18 15 above 0,44 0,53 0,58 0,67 0,485 0,625 0,56 above Positive Positive Positive n.a Positive 2,915611648 78 0,895193946 25405 C2 Streptococcus 2 2
2RTB0334 2RTB0334 CCGGACTACHVGGGTWTCTAAT 3 Human 219,11 NSQ108 XXX South Africa 2RTB0334 stool ITP 1 LTBI+ 7/31/93 1 below 18-25 24 0 n.a F 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2013 3/25/13 More_than_1_year TDF FTC EFV 41334 above_463 640 100 43166 2012/05/17 No Yes 12_months No No below_29.08 28,13 2007/05/18 22 above 9,63 9,63 10 10 9,63 10 9,82 above Positive Positive Positive n.a Positive 4,393508588 218 0,978134016 48187 C2 Streptococcus 2 2
2RTB0335 2RTB0335 CCGGACTACHVGGGTWTCTAAT 3 Human 219,12 NSQ108 XXX South Africa 2RTB0335 stool ITP 1 LTBI+ 9/11/93 1 below 18-25 24 1 F G 1 Female African_black Xhosa No n.a No No n.a R0-R3000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2011 1/14/11 More_than_1_year TDF FTC EFV 40557 above_463 938 20 43021 6/18/17 No No n.a No No above_29.08 30,1 2006/10/18 20 above 7,48 8,91 7,77 9,2 8,195 8,485 8,34 above Positive Positive Positive n.a Positive 3,252481546 85 0,934001603 23283 C2 Streptococcus 2 2
2RTB0346 2RTB0346 CCGGACTACHVGGGTWTCTAAT 3 Human 219,13 NSQ108 XXX South Africa 2RTB0346 stool ITP 1 LTBI+ 8/30/93 1 below 18-25 24 1 G H 1 Female African_black Xhosa Yes Occasionally No No n.a R3000-R5000 1 Khayelitsha_Site_B_CHC No n.a n.a Positive_confirmed 2015 2003/11/15 More_than_1_year TDF FTC EFV 41772 Below_463 255 <100 43031 1/31/17 No No n.a No Yes above_29.08 29,67 2001/06/18 22 above 6,03 4,71 6,29 4,97 5,37 5,63 5,5 above Positive Positive Positive n.a Positive 3,997178032 195 0,955637071 33623 C2 Streptococcus 2 2
2RTB0358 2RTB0358 CCGGACTACHVGGGTWTCTAAT 3 Human 219,14 NSQ108 XXX South Africa 2RTB0358 stool ITN 2 LTBI- 3/12/94 1 below 18-25 24 1 E F 1 Female African_black Xhosa Yes Occasionally No No n.a R3000-R5000 2 Khayelitsha_Site_B_Youth No n.a n.a Positive_confirmed 2011 1/18/15 More_than_1_year TDF FTC EFV 41993 Below_463 332 155 43139 12/18/15 No No n.a No No above_29.08 39,3 7/27/18 0 below 0,23 -0,08 1,52 1,21 0,075 1,365 0,72 above Negative Negative Negative Positive Negative 3,667002992 148 0,939274593 24868 C2 Streptococcus 2 2
2RTB0360 2RTB0360 CCGGACTACHVGGGTWTCTAAT 3 Human 219,15 NSQ108 XXX South Africa 2RTB0360 stool ITN 2 LTBI- 1/1/95 1 below 18-25 23 1 P L 1 Female African_black Xhosa No n.a No No n.a R0-R3000 2 Khayelitsha_Site_B_Youth No n.a n.a Positive_confirmed 2016 12/24/15 More_than_1_year TDF FTC EFV 42359 Below_463 396 LDL 43138 11/25/17 No Yes 12_months No No below_29.08 23,44 2007/01/18 0 below -0,01 0,02 0,24 0,27 0,005 0,255 0,13 below Negative Negative Negative Negative Negative 4,134135906 173 0,970981874 28330 C2 Streptococcus 2 2
2RTB0366 2RTB0366 CCGGACTACHVGGGTWTCTAAT 3 Human 219,16 NSQ108 XXX South Africa 2RTB0366 stool ITP 1 LTBI+ 1/15/96 1 below 18-25 22 1 H I 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 2 Khayelitsha_Site_B_Youth No n.a n.a Positive_confirmed 2017 3/24/17 More_than_1_year TDF FTC EFV 42708 above_463 474 LDL 43061 2012/04/16 No No n.a No No above_29.08 34,72 5/27/18 20 above 10 10 10 10 10 10 10 above Positive Positive Positive n.a Positive 1,698704706 14 0,745119803 21172 C2 Streptococcus 1 2
2RTB0369 2RTB0369 CCGGACTACHVGGGTWTCTAAT 3 Human 219,17 NSQ108 XXX South Africa 2RTB0369 stool ITP 1 LTBI+ 9/14/95 1 below 18-25 22 1 I J 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2017 4/14/17 More_than_1_year TDF FTC EFV 42835 Below_463 244 Ldl 43026 2004/10/17 No Yes other Yes No above_29.08 31,25 8/27/18 25 above 0,71 0,55 1,27 1,11 0,63 1,19 0,91 above Positive Positive Positive n.a Positive 4,150459703 185 0,96856269 34911 C1 Bacteroides 1 1
2RTB0373 2RTB0373 CCGGACTACHVGGGTWTCTAAT 3 Human 219,18 NSQ108 XXX South Africa 2RTB0373 stool ITP 1 LTBI+ 8/9/93 1 below 18-25 24 1 J K 1 Female African_black Zulu No n.a No No n.a Above R5000 3 Site_C_Youth No n.a n.a Positive_confirmed 2015 10/17/15 More_than_1_year TDF FTC EFV 42291 above_463 952 LDL 43151 9/27/16 No Yes 12_months No No above_29.08 34,41 8/31/18 13 above 3,06 2,6 3,27 2,81 2,83 3,04 2,94 above Positive Positive Positive n.a Positive 3,427958691 129 0,911850464 35166 C1 Bacteroides 1 1
2RTB0377 2RTB0377 CCGGACTACHVGGGTWTCTAAT 3 Human 219,19 NSQ108 XXX South Africa 2RTB0377 stool ITP 1 LTBI+ 8/30/95 1 below 18-25 22 1 K L 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2012 12/13/16 More_than_1_year TDF FTC EFV 41225 above_463 508 <100 43075 10/25/17 No No n.a No No above_29.08 29,17 2009/07/18 18 above 2,44 2,49 2,62 2,67 2,465 2,645 2,56 above Positive Positive Positive n.a Positive 3,457543872 132 0,928337029 23692 C3 Prevotella 1 3
2RTB0382 2RTB0382 CCGGACTACHVGGGTWTCTAAT 3 Human 219,2 NSQ108 XXX South Africa 2RTB0382 stool ITN 2 LTBI- 3/16/95 1 below 18-25 23 1 R M 1 Female African_black Xhosa Yes Occasionally No No n.a Above R5000 2 Khayelitsha_Site_B_Youth No n.a n.a Positive_confirmed 2015 2/25/15 More_than_1_year TDF FTC EFV 41976 above_463 487 LDL 43214 2012/03/14 No Yes other Yes No below_29.08 23,44 2007/11/18 0 below -0,01 -0,09 0,44 0,36 -0,05 0,4 0,18 below Negative Negative Negative Negative Negative 3,496288635 132 0,909981193 19563 C3 Prevotella 1 3
2RTB0383 2RTB0383 CCGGACTACHVGGGTWTCTAAT 3 Human 219,21 NSQ108 XXX South Africa 2RTB0383 stool ITP 1 LTBI+ 6/20/94 1 below 18-25 23 1 L M 1 Female African_black Xhosa No n.a No No n.a R0-R3000 2 Khayelitsha_Site_B_Youth No n.a n.a Positive_confirmed 2016 3/13/16 More_than_1_year TDF FTC EFV 42442 above_463 830 <100 42905 2003/02/17 No Yes other Yes No above_29.08 39,8 7/30/18 28 above 6,35 6,87 9,54 10 6,61 9,77 8,19 above Positive Positive Positive n.a Positive 3,582047839 165 0,906208913 22346 C3 Prevotella 1 3
2RTB0384 2RTB0384 CCGGACTACHVGGGTWTCTAAT 3 Human 219,22 NSQ108 XXX South Africa 2RTB0384 stool ITN 2 LTBI- 9/9/92 1 below 18-25 25 1 H N 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2015 2005/10/16 More_than_1_year TDF FTC EFV 42421 above_463 839 Ldl 43215 11/26/17 No Yes 12_months No No above_29.08 38,16 5/21/18 0 below 0,1 0,19 0,54 0,63 0,145 0,585 0,37 below Negative Negative Negative Negative Negative 4,19914308 224 0,968916047 38395 C1 Bacteroides 1 1
2RTB0400 2RTB0400 CCGGACTACHVGGGTWTCTAAT 3 Human 219,23 NSQ108 XXX South Africa 2RTB0400 stool ITN 2 LTBI- 4/13/96 1 below 18-25 21 1 N E 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2015 2010/02/14 More_than_1_year TDF FTC EFV 41906 above_463 671 LDL 42830 1/18/16 No Yes 12_months No No below_29.08 23,74 5/24/18 0 below -0,04 0,05 1,34 1,43 0,005 1,385 0,7 above Negative Negative Negative Negative Negative 3,955990723 192 0,949132385 30578 C1 Bacteroides 1 1
2RTB0407 2RTB0407 CCGGACTACHVGGGTWTCTAAT 3 Human 219,24 NSQ108 XXX South Africa 2RTB0407 stool ITN 2 LTBI- 7/12/74 2 above 35-60 43 0 n.a n.a 0 Female African_black Xhosa No n.a No No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2013 2001/03/13 More_than_1_year TDF FTC EFV 41255 Below_463 380 LDL 42626 2005/02/15 No No n.a No No above_29.08 39,41 6/29/18 0 below 0,18 0,03 0,45 0,3 0,105 0,375 0,24 below Negative Negative Negative Negative Negative 3,089337265 117 0,886219167 33616 C3 Prevotella 1 3
2RTB0417 2RTB0417 CCGGACTACHVGGGTWTCTAAT 3 Human 219,25 NSQ108 XXX South Africa 2RTB0417 stool ITP 1 LTBI+ 12/18/94 1 below 18-25 23 1 M n.a 0 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2012 2005/02/17 More_than_1_year TDF FTC EFV 40823 above_463 938 LDL 43117 2012/12/15 No No n.a No No above_29.08 33,27 7/20/18 20 above 10 10 10 10 10 10 10 above Positive Positive Positive n.a Positive 3,786627852 165 0,953339975 39232 C1 Bacteroides 1 1
2RTB0420 2RTB0420 CCGGACTACHVGGGTWTCTAAT 3 Human 219,26 NSQ108 XXX South Africa 2RTB0420 stool ITP 1 LTBI+ 4/30/94 1 below 18-25 24 1 N n.a 0 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2016 2006/12/16 More_than_1_year TDF FTC EFV 42309 above_463 580 LDL 43214 2003/04/17 No Yes other Yes No above_29.08 29,3 10/16/18 15 above 9,62 9,62 10 10 9,62 10 9,81 above Positive Positive Positive n.a Positive 4,137824824 171 0,971281187 28029 C1 Bacteroides 1 1
2RTB0425 2RTB0425 CCGGACTACHVGGGTWTCTAAT 3 Human 219,27 NSQ108 XXX South Africa 2RTB0425 stool ITP 1 LTBI+ 11/29/97 1 below 18-25 20 1 O n.a 0 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 2 Khayelitsha_Site_B_Youth No n.a n.a Positive_confirmed 2017 12/20/16 More_than_1_year TDF FTC EFV 42717 Below_463 395 LDL 42947 12/13/16 No Yes other Yes No below_29.08 18,61 9/15/18 18 above 10 10 10 10 10 10 10 above Positive Positive Positive n.a Positive 3,628224796 129 0,948214111 31461 C1 Bacteroides 1 1
2RTB0426 2RTB0426 CCGGACTACHVGGGTWTCTAAT 3 Human 219,28 NSQ108 XXX South Africa 2RTB0426 stool ITN 2 LTBI- 6/12/93 1 below 18-25 24 1 I G 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2015 12/17/14 More_than_1_year TDF FTC EFV 41984 above_463 675 LDL 42976 11/16/15 No Yes 12_months No No below_29.08 25,1 5/30/18 0 below -0,03 -0,01 0,08 0,1 -0,02 0,09 0,04 below Negative Negative Negative Negative Negative 3,010571834 113 0,880613661 22741 C3 Prevotella 1 3
2RTB0427 2RTB0427 CCGGACTACHVGGGTWTCTAAT 3 Human 219,29 NSQ108 XXX South Africa 2RTB0427 stool ITP 1 LTBI+ 3/10/93 1 below 18-25 25 1 P N 1 Female African_black Xhosa Yes Occasionally No No n.a R3000-R5000 2 Khayelitsha_Site_B_Youth No n.a n.a Positive_confirmed 2013 3/13/13 More_than_1_year TDF FTC EFV 41327 above_463 754 LDL 43160 8/31/16 No No n.a No No below_29.08 28,84 2009/09/18 12 above 4,97 4,08 5,03 4,14 4,525 4,585 4,56 above Positive Positive Positive n.a Positive 2,940660859 125 0,80252824 24318 C3 Prevotella 1 3
2RTB0433 2RTB0433 CCGGACTACHVGGGTWTCTAAT 3 Human 219,3 NSQ108 XXX South Africa 2RTB0433 stool ITP 1 LTBI+ 4/14/94 1 below 18-25 24 1 Q n.a 0 Female African_black Xhosa No n.a No No n.a Above R5000 3 Site_C_Youth No n.a n.a Positive_confirmed 2009 2008/11/09 More_than_1_year TDF FTC EFV 40030 Below_463 344 LDL 43182 6/20/14 No Yes 12_months No No below_29.08 23,59 8/17/18 10 above 1,27 0,67 1,53 0,93 0,97 1,23 1,1 above Positive Positive Positive n.a Positive 4,212699858 167 0,974075778 31172 C1 Bacteroides 1 1
2RTB0434 2RTB0434 CCGGACTACHVGGGTWTCTAAT 3 Human 219,31 NSQ108 XXX South Africa 2RTB0434 stool ITP 1 LTBI+ 6/23/94 1 below 18-25 24 1 R n.a 0 Female African_black Xhosa No n.a No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2014 2011/08/14 More_than_1_year TDF FTC EFV 41531 Below_463 369 LDL 43179 2011/08/14 No Yes other No No below_29.08 26,14 8/20/18 15 above 0,32 0,59 0,49 0,76 0,455 0,625 0,54 above Positive Positive Positive n.a Positive 2,839279171 64 0,910544722 21765 C1 Prevotella 1 1
2RTB0435 2RTB0435 CCGGACTACHVGGGTWTCTAAT 3 Human 219,32 NSQ108 XXX South Africa 2RTB0435 stool ITN 2 LTBI- 11/17/93 1 below 18-25 24 1 O K 1 Female African_black Xhosa No n.a No No n.a R3000-R5000 3 Site_C_Youth No n.a n.a Positive_confirmed 2014 10/18/13 More_than_1_year TDF FTC EFV 41554 Below_463 347 26 42788 10/14/15 No Yes 12_months No Yes below_29.08 25,78 2010/11/18 0 below -0,01 0,04 0,05 0,1 0,015 0,075 0,05 below Negative Negative Negative Negative Negative 2,856682266 123 0,818961552 39883 C1 Prevotella 1 1
2RTB0436 2RTB0436 CCGGACTACHVGGGTWTCTAAT 3 Human 219,33 NSQ108 XXX South Africa 2RTB0436 stool ITP 1 LTBI+ 8/26/93 1 below 18-25 25 1 S O 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2014 7/14/14 More_than_1_year TDF FTC EFV 41816 Below_463 308 Ldl 42788 7/28/15 No Yes 12_months No No below_29.08 19,6 10/18/18 16 above 4,64 4,84 6,28 6,48 4,74 6,38 5,56 above Positive Positive Positive n.a Positive 3,426368147 141 0,918614441 26112 C3 Prevotella 1 3
2RTB0437 2RTB0437 CCGGACTACHVGGGTWTCTAAT 3 Human 219,34 NSQ108 XXX South Africa 2RTB0437 stool ITP 1 LTBI+ 5/27/93 1 below 18-25 24 0 n.a n.a 0 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2014 2004/02/14 More_than_1_year TDF FTC EFV 41706 above_463 709 Ldl 42788 2009/12/16 No Yes 12_months No No above_29.08 32,02 8/14/18 16 above 5,41 7,09 5,51 7,19 6,25 6,35 6,3 above Positive Positive Positive n.a Positive 3,802151466 158 0,960050914 34583 C1 Bacteroides 1 1
2RTB0444 2RTB0444 CCGGACTACHVGGGTWTCTAAT 3 Human 219,35 NSQ108 XXX South Africa 2RTB0444 stool ITN 2 LTBI- 1/10/93 1 below 18-25 25 1 M O 1 Female African_black Xhosa Yes Occasionally current smoker No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2010 2002/12/17 More_than_1_year TDF FTC EFV 42778 Below_463 320 100 43390 2002/12/17 No No n.a Yes No below_29.08 19,38 5/29/18 0 below 0,24 0,31 0,44 0,51 0,275 0,475 0,38 below Negative Negative Negative Positive Negative 3,227152797 113 0,93047011 31735 C3 Prevotella 1 3
2RTB0447 2RTB0447 CCGGACTACHVGGGTWTCTAAT 3 Human 219,36 NSQ108 XXX South Africa 2RTB0447 stool ITP 1 LTBI+ 4/11/93 1 below 18-25 25 1 T P 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2014 7/21/15 More_than_1_year TDF FTC EFV 42181 above_463 608 LDL 43151 2008/03/16 No Yes 12_months No No above_29.08 41,12 12/29/18 14 above 8,51 9,3 8,9 9,69 8,91 9,295 9,1 above Positive Positive Positive n.a Positive 2,952075655 82 0,905566355 20509 C3 Prevotella 1 3
2RTB0456 2RTB0456 CCGGACTACHVGGGTWTCTAAT 3 Human 219,37 NSQ108 XXX South Africa 2RTB0456 stool ITN 2 LTBI- 3/4/96 1 below 18-25 22 1 Q I 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2016 2012/06/15 More_than_1_year TDF FTC EFV 42319 above_463 471 LDL 43349 2003/12/17 No No n.a Yes No below_29.08 25,06 9/18/18 0 below -0,08 -0,02 0,44 0,5 -0,05 0,47 0,21 below Negative Negative Negative Negative Negative 4,007973218 192 0,962975553 32596 C1 Bacteroides 1 1
2RTB0462 2RTB0462 CCGGACTACHVGGGTWTCTAAT 3 Human 219,38 NSQ108 XXX South Africa 2RTB0462 stool ITP 1 LTBI+ 8/24/97 1 below 18-25 21 0 n.a n.a 0 Female African_black Xhosa No n.a No No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2015 2009/03/15 More_than_1_year TDF FTC EFV 42250 Below_463 265 Lower than detectable limit 43115 2009/03/15 No No n.a No No below_29.08 22,41 2003/05/19 5 above 0,29 0,43 0,32 0,46 0,36 0,39 0,38 below Positive Positive Positive Positive Positive 4,46927879 236 0,980101862 41557 C1 Bacteroides 1 1
2RTB0464 2RTB0464 CCGGACTACHVGGGTWTCTAAT 3 Human 219,39 NSQ108 XXX South Africa 2RTB0464 stool ITN 2 LTBI- 6/20/61 2 above 35-60 57 1 D n.a 0 Female African_black Xhosa No n.a No No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2016 1/18/16 More_than_1_year TDF FTC EFV 42365 Below_463 291 100 43139 12/13/17 No Yes 12_months No No below_29.08 23,12 2/13/19 0 below 0,01 0,01 0,03 0,03 0,01 0,03 0,02 below Negative Negative Negative Negative Negative 3,106005993 100 0,904283637 18743 C3 Prevotella 1 3
2RTB0466 2RTB0466 CCGGACTACHVGGGTWTCTAAT 3 Human 219,4 NSQ108 XXX South Africa 2RTB0466 stool ITN 2 LTBI- 7/2/79 2 above 35-60 40 0 n.a n.a 0 Female African_black Other No n.a No No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2011 11/19/11 More_than_1_year TDF FTC EFV 40866 Below_463 219 824 42800 2012/10/16 No Yes 12_months No No below_29.08 26,81 1/19/19 0 below -0,01 -0,01 0,02 0,02 -0,01 0,02 0,01 below Negative Negative Negative Negative Negative 2,840895644 84 0,859071949 17622 C3 Prevotella 1 3
2RTB0472 2RTB0472 CCGGACTACHVGGGTWTCTAAT 3 Human 219,41 NSQ108 XXX South Africa 2RTB0472 stool ITN 2 LTBI- 5/3/66 2 above 35-60 52 1 C A 1 Female African_black Xhosa Yes Occasionally No No n.a Above R5000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2014 2/22/14 More_than_1_year ABC 3TC EFV 41692 above_463 740 Ldl 43410 2006/03/15 No No n.a No Yes above_29.08 46,62 2012/05/18 0 below 0,11 0 0,19 0,08 0,055 0,135 0,1 below Negative Negative Negative Negative Negative 3,704456001 149 0,947825608 38285 C1 Bacteroides 1 1
2RTB0473 2RTB0473 CCGGACTACHVGGGTWTCTAAT 3 Human 219,42 NSQ108 XXX South Africa 2RTB0473 stool ITN 2 LTBI- 3/3/63 2 above 35-60 55 0 n.a n.a 0 Female African_black Xhosa No n.a No No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2013 7/25/13 More_than_1_year TDF FTC EFV 41429 above_463 481 Ldl 43159 2001/10/18 No Yes other No Yes below_29.08 29 2002/07/19 0 below 0,01 -0,01 0,13 0,11 0 0,12 0,06 below Negative Negative Negative Negative Negative 3,44854515 111 0,928927807 18870 C1 Bacteroides 1 1
2RTB0481 2RTB0481 CCGGACTACHVGGGTWTCTAAT 3 Human 219,43 NSQ108 XXX South Africa 2RTB0481 stool ITN 2 LTBI- 3/18/94 1 below 18-25 24 1 L H 1 Female African_black Other No n.a No No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2017 3/19/17 More_than_1_year AZT 3TC LPV/r 42813 Below_463 377 Ldl 43248 3/19/17 No No n.a No No below_29.08 26,04 1/15/19 0 below -0,07 -0,07 0,17 0,17 -0,07 0,17 0,05 below Negative Negative Negative Negative Negative 2,895413681 99 0,899371461 26883 C1 Bacteroides 1 1
2RTB0488 2RTB0488 CCGGACTACHVGGGTWTCTAAT 3 Human 219,44 NSQ108 XXX South Africa 2RTB0488 stool ITN 2 LTBI- 11/29/93 1 below 18-25 25 1 K P 1 Female African_black Zulu Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2017 9/15/17 More_than_1_year TDF FTC EFV 42989 above_463 685 LDL 43425 10/13/18 No No n.a Yes No below_29.08 28,67 2003/03/19 0 below -0,04 -0,05 0,06 0,05 -0,045 0,055 0,01 below Negative Negative Negative Positive Negative 2,53135607 67 0,821384287 25204 C1 Bacteroides 1 1
2RTB0489 2RTB0489 CCGGACTACHVGGGTWTCTAAT 3 Human 219,45 NSQ108 XXX South Africa 2RTB0489 stool ITP 1 LTBI+ 8/11/97 1 below 18-25 20 0 n.a n.a 0 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2016 2004/03/16 More_than_1_year TDF FTC EFV 42385 above_463 575 Lower than detectable limit 43201 5/13/17 No No n.a Yes No above_29.08 39,91 4/30/18 20 above 5,56 5,75 7,76 7,95 5,655 7,855 6,76 above Positive Positive Positive n.a Positive 3,171782188 78 0,914833576 21553 C1 Bacteroides 1 1
2RTB0491 2RTB0491 CCGGACTACHVGGGTWTCTAAT 3 Human 219,46 NSQ108 XXX South Africa 2RTB0491 stool ITN 2 LTBI- 6/7/74 2 above 35-60 44 0 n.a n.a 0 Female African_black Xhosa Yes Once a week No No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2007 2008/12/07 More_than_1_year TDF FTC EFV 39306 above_463 1186 33 43236 11/24/14 No No n.a No No above_29.08 32,42 2/19/19 0 below 0,01 -0,01 0,16 0,14 0 0,15 0,08 below Negative Negative Negative Negative Negative 2,831793755 72 0,88955408 14080 C1 Bacteroides 1 1
2RTB0495 2RTB0495 CCGGACTACHVGGGTWTCTAAT 3 Human 219,47 NSQ108 XXX South Africa 2RTB0495 stool ITN 2 LTBI- 3/12/77 2 above 35-60 41 0 n.a n.a 0 Female African_black Xhosa No n.a No Yes Daily R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2010 6/27/11 More_than_1_year TDF FTC EFV 40267 above_463 691 27 43242 12/19/14 No No n.a No No above_29.08 32,05 1/14/19 0 below 0,25 0,2 0,5 0,45 0,225 0,475 0,35 below Negative Negative Negative Negative Negative 2,976165253 112 0,854310207 21549 C1 Prevotella 1 1
2RTB0501 2RTB0501 CCGGACTACHVGGGTWTCTAAT 3 Human 219,48 NSQ108 XXX South Africa 2RTB0501 stool ITP 1 LTBI+ 2/18/98 1 below 18-25 21 0 n.a n.a 0 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2017 2004/04/17 More_than_1_year TDF FTC EFV 42822 above_463 465 LDL 43287 5/24/18 No No n.a Yes No below_29.08 25,71 3/28/19 16 above 6,71 6,96 7,47 7,72 6,835 7,595 7,22 above Positive Positive Positive n.a Positive 3,722441042 165 0,928500585 29087 C1 Bacteroides 1 1
2RTB0502 2RTB0502 CCGGACTACHVGGGTWTCTAAT 3 Human 219,49 NSQ108 XXX South Africa 2RTB0502 stool ITN 2 LTBI- 12/15/96 1 below 18-25 22 1 J J 1 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 3 Site_C_Youth No n.a n.a Positive_confirmed 2017 4/24/17 More_than_1_year TDF FTC EFV 42846 above_463 579 LDL 43399 2009/07/18 No No n.a Yes No below_29.08 26,16 2004/11/19 0 below -0,05 -0,02 0,34 0,37 -0,035 0,355 0,16 below Negative Negative Negative Negative Negative 3,661441496 122 0,9343292 33864 C1 Bacteroides 1 1
2RTB0504 2RTB0504 CCGGACTACHVGGGTWTCTAAT 3 Human 219,5 NSQ108 XXX South Africa 2RTB0504 stool ITN 2 LTBI- 5/24/79 2 above 35-60 39 1 F n.a 0 Female African_black Xhosa Yes Occasionally No No n.a R0-R3000 4 Kraaifontein_CHC No n.a n.a Positive_confirmed 2017 8/16/16 More_than_1_year TDF FTC EFV 42577 Below_463 258 43 43402 9/16/17 No No n.a No No below_29.08 23,73 8/14/18 0 below -0,04 -0,08 0,37 0,33 -0,06 0,35 0,15 below Negative Negative Negative Negative Negative 3,922727675 127 0,965731239 23013 C1 Bacteroides 1 1