#83 more news, fix tags, fix farouq

_data/citations copy.yaml

@@ -0,0 +1,247 @@
+# DO NOT EDIT, GENERATED AUTOMATICALLY
+
+- id: doi:10.1093/nar/gkad1082
+  title: "The Monarch Initiative in 2024: an analytic platform integrating phenotypes,\
+    \ genes\_and diseases across species"
+  authors:
+  - Tim E Putman
+  - Kevin Schaper
+  - Nicolas Matentzoglu
+  - "Vincent\_P Rubinetti"
+  - "Faisal\_S Alquaddoomi"
+  - Corey Cox
+  - J Harry Caufield
+  - Glass Elsarboukh
+  - Sarah Gehrke
+  - Harshad Hegde
+  - "Justin\_T Reese"
+  - Ian Braun
+  - "Richard\_M Bruskiewich"
+  - Luca Cappelletti
+  - Seth Carbon
+  - "Anita\_R Caron"
+  - "Lauren\_E Chan"
+  - "Christopher\_G Chute"
+  - "Katherina\_G Cortes"
+  - "Vin\xEDcius De\_Souza"
+  - Tommaso Fontana
+  - "Nomi\_L Harris"
+  - "Emily\_L Hartley"
+  - Eric Hurwitz
+  - "Julius\_O B Jacobsen"
+  - Madan Krishnamurthy
+  - "Bryan\_J Laraway"
+  - "James\_A McLaughlin"
+  - "Julie\_A McMurry"
+  - "Sierra\_A T Moxon"
+  - "Kathleen\_R Mullen"
+  - "Shawn\_T O\u2019Neil"
+  - "Kent\_A Shefchek"
+  - Ray Stefancsik
+  - Sabrina Toro
+  - "Nicole\_A Vasilevsky"
+  - "Ramona\_L Walls"
+  - "Patricia\_L Whetzel"
+  - David Osumi-Sutherland
+  - Damian Smedley
+  - "Peter\_N Robinson"
+  - "Christopher\_J Mungall"
+  - "Melissa\_A Haendel"
+  - "Monica\_C Munoz-Torres"
+  publisher: Nucleic Acids Research
+  date: '2023-11-24'
+  link: https://doi.org/gs6kmr
+  orcid: 0000-0002-4655-3773
+  plugin: orcid.py
+  file: orcid.yaml
+- id: doi:10.1101/2023.10.11.560955
+  title: Integration of 168,000 samples reveals global patterns of the human gut microbiome
+  authors:
+  - Richard J. Abdill
+  - Samantha P. Graham
+  - Vincent Rubinetti
+  - Frank W. Albert
+  - Casey S. Greene
+  - Sean Davis
+  - Ran Blekhman
+  publisher: Cold Spring Harbor Laboratory
+  date: '2023-10-11'
+  link: https://doi.org/gsvf5z
+  orcid: 0000-0002-4655-3773
+  plugin: orcid.py
+  file: orcid.yaml
+- id: doi:10.1093/nar/gkad289
+  title: 'MyGeneset.info: an interactive and programmatic platform for community-curated
+    and user-created collections of genes'
+  authors:
+  - Ricardo Avila
+  - Vincent Rubinetti
+  - Xinghua Zhou
+  - Dongbo Hu
+  - Zhongchao Qian
+  - Marco Alvarado Cano
+  - Everaldo Rodolpho
+  - Ginger Tsueng
+  - Casey Greene
+  - Chunlei Wu
+  publisher: Nucleic Acids Research
+  date: '2023-04-18'
+  link: https://doi.org/gr5hb5
+  orcid: 0000-0002-4655-3773
+  plugin: orcid.py
+  file: orcid.yaml
+- id: doi:10.1101/2023.01.05.522941
+  title: Hetnet connectivity search provides rapid insights into how two biomedical
+    entities are related
+  authors:
+  - Daniel S. Himmelstein
+  - Michael Zietz
+  - Vincent Rubinetti
+  - Kyle Kloster
+  - Benjamin J. Heil
+  - Faisal Alquaddoomi
+  - Dongbo Hu
+  - David N. Nicholson
+  - Yun Hao
+  - Blair D. Sullivan
+  - Michael W. Nagle
+  - Casey S. Greene
+  publisher: Cold Spring Harbor Laboratory
+  date: '2023-01-07'
+  link: https://doi.org/grmcb9
+  orcid: 0000-0002-4655-3773
+  plugin: orcid.py
+  file: orcid.yaml
+- id: doi:10.1093/gigascience/giad047
+  title: Hetnet connectivity search provides rapid insights into how biomedical entities
+    are related
+  authors:
+  - Daniel S Himmelstein
+  - Michael Zietz
+  - Vincent Rubinetti
+  - Kyle Kloster
+  - Benjamin J Heil
+  - Faisal Alquaddoomi
+  - Dongbo Hu
+  - David N Nicholson
+  - Yun Hao
+  - Blair D Sullivan
+  - Michael W Nagle
+  - Casey S Greene
+  publisher: GigaScience
+  date: '2022-12-28'
+  link: https://doi.org/gsd85n
+  orcid: 0000-0002-4655-3773
+  plugin: orcid.py
+  file: orcid.yaml
+- id: doi:10.1101/2022.02.18.461833
+  title: 'MolEvolvR: A web-app for characterizing proteins using molecular evolution
+    and phylogeny'
+  authors:
+  - Jacob D Krol
+  - Joseph T Burke
+  - Samuel Z Chen
+  - Lo M Sosinski
+  - Faisal S Alquaddoomi
+  - Evan P Brenner
+  - Ethan P Wolfe
+  - Vincent P Rubinetti
+  - Shaddai Amolitos
+  - Kellen M Reason
+  - John B Johnston
+  - Janani Ravi
+  publisher: Cold Spring Harbor Laboratory
+  date: '2022-02-22'
+  link: https://doi.org/gstx7j
+  orcid: 0000-0002-4655-3773
+  plugin: orcid.py
+  file: orcid.yaml
+- id: doi:10.1186/s13059-020-02021-3
+  title: Compressing gene expression data using multiple latent space dimensionalities
+    learns complementary biological representations
+  authors:
+  - Gregory P. Way
+  - Michael Zietz
+  - Vincent Rubinetti
+  - Daniel S. Himmelstein
+  - Casey S. Greene
+  publisher: Genome Biology
+  date: '2020-05-11'
+  link: https://doi.org/gg2mjh
+  orcid: 0000-0002-4655-3773
+  plugin: orcid.py
+  file: orcid.yaml
+- id: doi:10.1371/journal.pcbi.1007128
+  title: Open collaborative writing with Manubot
+  authors:
+  - Daniel S. Himmelstein
+  - Vincent Rubinetti
+  - David R. Slochower
+  - Dongbo Hu
+  - Venkat S. Malladi
+  - Casey S. Greene
+  - Anthony Gitter
+  publisher: PLOS Computational Biology
+  date: '2020-12-04'
+  link: https://doi.org/c7np
+  orcid: 0000-0002-4655-3773
+  plugin: sources.py
+  file: sources.yaml
+  type: paper
+  description: Lorem ipsum _dolor_ **sit amet**, consectetur adipiscing elit, sed
+    do eiusmod tempor incididunt ut labore et dolore magna aliqua.
+  image: https://journals.plos.org/ploscompbiol/article/figure/image?size=inline&id=info:doi/10.1371/journal.pcbi.1007128.g001&rev=2
+  buttons:
+  - type: manubot
+    link: https://greenelab.github.io/meta-review/
+  - type: source
+    text: Manuscript Source
+    link: https://github.com/greenelab/meta-review
+  - type: website
+    link: http://manubot.org/
+  tags:
+  - open science
+  - collaboration
+  repo: greenelab/meta-review
+- id: doi:10.1101/573782
+  title: Sequential compression of gene expression across dimensionalities and methods
+    reveals no single best method or dimensionality
+  authors:
+  - Gregory P. Way
+  - Michael Zietz
+  - Vincent Rubinetti
+  - Daniel S. Himmelstein
+  - Casey S. Greene
+  publisher: Cold Spring Harbor Laboratory
+  date: '2019-03-11'
+  link: https://doi.org/gfxjxf
+  orcid: 0000-0002-4655-3773
+  plugin: orcid.py
+  file: orcid.yaml
+- id: doi:10.1016/j.csbj.2020.05.017
+  title: Constructing knowledge graphs and their biomedical applications
+  authors:
+  - David N. Nicholson
+  - Casey S. Greene
+  publisher: Computational and Structural Biotechnology Journal
+  date: '2020-01-01'
+  link: https://doi.org/gg7m48
+  image: https://ars.els-cdn.com/content/image/1-s2.0-S2001037020302804-gr1.jpg
+  plugin: sources.py
+  file: sources.yaml
+- id: doi:10.7554/eLife.32822
+  title: Sci-Hub provides access to nearly all scholarly literature
+  authors:
+  - Daniel S Himmelstein
+  - Ariel Rodriguez Romero
+  - Jacob G Levernier
+  - Thomas Anthony Munro
+  - Stephen Reid McLaughlin
+  - Bastian Greshake Tzovaras
+  - Casey S Greene
+  publisher: eLife
+  date: '2018-03-01'
+  link: https://doi.org/ckcj
+  image: https://iiif.elifesciences.org/lax:32822%2Felife-32822-fig8-v3.tif/full/863,/0/default.webp
+  plugin: sources.py
+  file: sources.yaml

_i18n/jp/_posts/2022-05-18-3.md

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+---
+title: 室内用３次元自己位置推定論文が掲載されました
+author: aislab_webstaff
+lang: ja
+image: /images/default.jpg
+tags:
+  - event
+---
+Thuan Bui Bachさんの論文がISPRS Journal of Photogrammetry and Remote Sensingに掲載されました。ISPRS Journal of Photogrammetry and Remote SensingはImpact Factor 8.979（2022年現在）と、とても影響力のあるトップジャーナルです。論文は、2Dカメラデータを用いた室内用3次元自己位置推定に関する内容で、提案手法が既存の手法より高い精度と性能であることを比較実験で証明しています。ソースコードも公開されているのでご興味のある方は下記の情報もご覧ください。 FeatLoc: Absolute pose regressor for indoor 2D sparse features with simplistic view synthesizing Thuan Bui Bach, Tuan Tran Dinh, Joo-Ho Lee ISPRS Journal of Photogrammetry and Remote Sensing, Volume 189, 2022, Pages 50-62, ISSN 0924-2716, https://doi.org/10.1016/j.isprsjprs.2022.04.021. Abstract: Precise localization using visual sensors is a fundamental requirement in many applications, including robotics, augmented reality, and autonomous systems. Traditionally, the localization problem has been tackled by leveraging 3D-geometry registering approaches. Recently, end-to-end regressor strategies using deep convolutional neural networks have achieved impressive performance, but they do not achieve the same performance as 3D structure-based methods. To some extent, this problem has been tackled by leveraging the beneficial properties of sequential images or geometric constraints. However, these approaches can only achieve a slight improvement. In this work, we address this problem for indoor scenarios, and we argue that regressing the camera pose using sparse feature descriptors could significantly improve the pose regressor performance compared with deep single-feature-vector representation. We propose a novel approach that can directly consume sparse feature descriptors to regress the camera pose effectively. More importantly, we propose a simplistic data augmentation procedure to exploit the sparse descriptors of unseen poses, leading to a remarkable enhancement in the generalization performance. Lastly, we present an extensive evaluation of our method on publicly available indoor datasets. Our FeatLoc achieves 22% and 40% improvements in translation errors on 7-Scenes and 12-Scenes relatively, compared with recent state-of-the-art absolute pose regression-based approaches. Our codes are released at https://github.com/ais-lab/FeatLoc. Keywords: Visual localization; Sparse features; Absolute pose regression
+
+{% capture col1 %}
+
+{% endcapture %}
+
+{% capture col2 %}
+
+{% endcapture %}
+
+{% include cols.html col1=col1 col2=col2 %}

_i18n/jp/_posts/2022-05-31-cdoleading-academic-data-leaders.md

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+---
+title: 李先生がCDOマガジンが発表したLeading Academic Data Leadersに選定されました。
+author: aislab_webstaff
+lang: ja
+image: http://www.aislab.org/wp-content/uploads/2022/05/CDOmagazine-1024x571.png
+tags:
+  - event
+---
+李先生がCDO（Chief Data Officer）Magazineが選定した世界のLeading Academic Data Leadersに選ばれました。詳細な内容は以下のリンクからご覧ください。 Leading Academic Data Leaders
+
+{% capture col1 %}
+{%
+  include figure.html
+  image="http://www.aislab.org/wp-content/uploads/2022/05/CDOmagazine-1024x571.png"
+  width="800px"
+%}
+{% endcapture %}
+
+{% capture col2 %}
+
+{% endcapture %}
+
+{% include cols.html col1=col1 col2=col2 %}

_i18n/jp/_posts/2022-09-15-fujii.md

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+---
+title: 博士後期課程学生の藤井康之くんが日本ロボット学会の発表で「若手講演賞」を受賞しました
+author: aislab_webstaff
+lang: ja
+image: http://www.aislab.org/wp-content/uploads/2022/09/FcCFwFuaQAE4lyZ-1024x768.jpg
+tags:
+  - event
+---
+博士後期課程学生の藤井康之くんが第39回日本ロボット学会学術講演会での講演内容が評価され「若手講演賞」を受賞しました。 おめでとうございます！ 授賞式での藤井さん
+
+{% capture col1 %}
+{%
+  include figure.html
+  image="http://www.aislab.org/wp-content/uploads/2022/09/FcCFwFuaQAE4lyZ-1024x768.jpg"
+  width="800px"
+%}
+{%
+  include figure.html
+  image="http://www.aislab.org/wp-content/uploads/2022/09/49cf8890-8c01-4520-80dc-66e993bd92b8-1024x575.jpg"
+  width="500px"
+%}
+{% endcapture %}
+
+{% capture col2 %}
+
+{% endcapture %}
+
+{% include cols.html col1=col1 col2=col2 %}

_i18n/jp/_posts/2024-01-24-si2023.md

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+---
+title: SI2023で研究発表しました
+author: aislab_webstaff
+lang: ja
+image: http://www.aislab.org/wp-content/uploads/2024/01/LINE_ALBUM_SI2023_240124-300x225.jpg
+tags:
+  - event
+---
+2023年12月14日～12月16日に開催されたSI2023(第24回計測自動制御学会システムインテグレーション部門講演会)にて，李研究室から9件の講演をしました． 本研究室の講演にたくさんお集まりいただきありがとうございました．
+
+{% capture col1 %}
+{%
+  include figure.html
+  image="http://www.aislab.org/wp-content/uploads/2024/01/LINE_ALBUM_SI2023_240124-300x225.jpg"
+  width="800px"
+%}
+{%
+  include figure.html
+  image="http://www.aislab.org/wp-content/uploads/2024/01/LINE_ALBUM_20231216_240124-300x225.jpg"
+  width="500px"
+%}
+{% endcapture %}
+
+{% capture col2 %}
+{%
+  include figure.html
+  image="http://www.aislab.org/wp-content/uploads/2024/01/LINE_ALBUM_SI2023_240124-1-300x225.jpg"
+  width="500px"
+%}
+{% endcapture %}
+
+{% include cols.html col1=col1 col2=col2 %}