R
Rui Chen
Researcher at Baylor College of Medicine
Publications - 339
Citations - 13298
Rui Chen is an academic researcher from Baylor College of Medicine. The author has contributed to research in topics: Computer science & Gene. The author has an hindex of 52, co-authored 212 publications receiving 10762 citations. Previous affiliations of Rui Chen include Baylor University & Human Genome Sequencing Center.
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Journal ArticleDOI
Evolutionary and biomedical insights from the rhesus macaque genome
Richard A. Gibbs,Jeffrey Rogers,Michael G. Katze,Roger E. Bumgarner,George M. Weinstock,Elaine R. Mardis,Karin A. Remington,Robert L. Strausberg,J. Craig Venter,Richard K. Wilson,Mark A. Batzer,Carlos Bustamante,Evan E. Eichler,Matthew W. Hahn,Ross C. Hardison,Kateryna D. Makova,Webb Miller,Aleksandar Milosavljevic,Robert E. Palermo,Adam Siepel,James M. Sikela,Tony Attaway,Stephanie Bell,Kelly E. Bernard,Christian J. Buhay,Mimi N. Chandrabose,Marvin Diep Dao,Clay Davis,Kimberly D. Delehaunty,Yan Ding,Huyen Dinh,Shannon Dugan-Rocha,Lucinda Fulton,Ramatu Ayiesha Gabisi,Toni T. Garner,Jennifer Godfrey,Alicia Hawes,Judith Hernandez,Sandra Hines,Michael Holder,Jennifer Hume,Shalini N. Jhangiani,Vandita Joshi,Ziad Khan,Ewen F. Kirkness,Andrew Cree,R. Gerald Fowler,Sandra L. Lee,Lora Lewis,Zhangwan Li,Yih-shin Liu,Stephanie M. Moore,Donna M. Muzny,Lynne V. Nazareth,Dinh Ngoc Ngo,Geoffrey Okwuonu,Grace Pai,David A. Parker,Heidie A. Paul,Cynthia Pfannkoch,Craig Pohl,Yu-Hui Rogers,San Juana Ruiz,Aniko Sabo,Jireh Santibanez,Brian W. Schneider,Scott M. Smith,Erica Sodergren,Amanda F. Svatek,Teresa Utterback,Selina Vattathil,Wesley C. Warren,Courtney Sherell White,Asif T. Chinwalla,Yucheng Feng,Aaron L. Halpern,LaDeana W. Hillier,Xiaoqiu Huang,Patrick Minx,Joanne O. Nelson,Kymberlie H. Pepin,Xiang Qin,Granger G. Sutton,Eli Venter,Brian P. Walenz,John W. Wallis,Kim C. Worley,Shiaw-Pyng Yang,Steven J. M. Jones,Marco A. Marra,Mariano Rocchi,Jacqueline E. Schein,Robert Baertsch,Laura Clarke,Miklós Csürös,Jarret Glasscock,R. Alan Harris,Paul Havlak,Andrew R. Jackson,Huaiyang Jiang,Yue Liu,David N. Messina,Yufeng Shen,Henry Xing-Zhi Song,Todd Wylie,Lan Zhang,Ewan Birney,Kyudong Han,Miriam K. Konkel,Jungnam Lee,Arian F.A. Smit,Brygg Ullmer,Hui Wang,Jinchuan Xing,Jinchuan Xing,Richard Burhans,Ze Cheng,John E. Karro,Jian Ma,Brian J. Raney,Xinwei She,Michael J. Cox,Jeffery P. Demuth,Laura J. Dumas,Sang-Gook Han,Janet A. Hopkins,Anis Karimpour-Fard,Young Ho Kim,Jonathan R. Pollack,Tomas Vinar,Charles Addo-Quaye,Jeremiah D. Degenhardt,Alexandra Denby,Melissa J. Hubisz,Amit Indap,Carolin Kosiol,Bruce T. Lahn,Heather A. Lawson,Alison Marklein,Rasmus Nielsen,Eric J. Vallender,Andrew G. Clark,Betsy Ferguson,Ryan D. Hernandez,Kashif Hirani,Hildegard Kehrer-Sawatzki,Jessica Kolb,Shobha Patil,Ling-Ling Pu,Yanru Ren,David Glenn Smith,David A. Wheeler,Ian Schenck,Edward V. Ball,Rui Chen,David Neil Cooper,Belinda Giardine,Fan Hsu,W. James Kent,Arthur M. Lesk,David L. Nelson,William E. O'Brien,Kay Prüfer,Peter D. Stenson,James C. Wallace,Hui Ke,Xiaoming Liu,Peng Wang,Andy Peng Xiang,Fan Yang,Galt P. Barber,David Haussler,David Haussler,Donna Karolchik,Andrew D. Kern,Robert M. Kuhn,Kayla E. Smith,Ann S. Zwieg +177 more
TL;DR: The genome sequence of an Indian-origin Macaca mulatta female is determined and compared with chimpanzees and humans to reveal the structure of ancestral primate genomes and to identify evidence for positive selection and lineage-specific expansions and contractions of gene families.
Journal ArticleDOI
Comparative genome sequencing of Drosophila pseudoobscura: Chromosomal, gene, and cis-element evolution
Stephen Richards,Yue Liu,Bettencourt Brian,Pavel Hradecky,Stan Letovsky,Rasmus Nielsen,Kevin R. Thornton,Melissa J. Hubisz,Rui Chen,Richard P. Meisel,Olivier Couronne,Olivier Couronne,Sujun Hua,Mark A. Smith,Peili Zhang,Jing Liu,Harmen J. Bussemaker,Marinus F. van Batenburg,Marinus F. van Batenburg,Sally Howells,Steven E. Scherer,Erica Sodergren,Beverly B. Matthews,Madeline A. Crosby,Andrew J. Schroeder,Daniel Ortiz-Barrientos,Catharine M. Rives,Michael L. Metzker,Donna M. Muzny,Graham R. Scott,David Steffen,David A. Wheeler,Kim C. Worley,Paul Havlak,K. James Durbin,Amy Egan,Rachel Gill,Jennifer Hume,Margaret Morgan,George Miner,Cerissa Hamilton,Yanmei Huang,Lenee Waldron,Daniel Verduzco,Kerstin P. Clerc-Blankenburg,Inna Dubchak,Mohamed A. F. Noor,Wyatt W. Anderson,Kevin P. White,Andrew G. Clark,Stephen W. Schaeffer,William M. Gelbart,George M. Weinstock,Richard A. Gibbs +53 more
TL;DR: A pattern of repeat-mediated chromosomal rearrangement, and high coadaptation of both male genes and cis-regulatory sequences emerges as important themes of genome divergence between these species of Drosophila.
Journal ArticleDOI
Epigenomic Profiling of Young and Aged HSCs Reveals Concerted Changes during Aging that Reinforce Self-Renewal
Deqiang Sun,Min Luo,Mira Jeong,Benjamin Rodriguez,Zheng Xia,Rebecca Hannah,Hui Wang,Thuc Le,Kym F. Faull,Rui Chen,Hongcang Gu,Christoph Bock,Christoph Bock,Alexander Meissner,Berthold Göttgens,Gretchen J. Darlington,Wei Li,Margaret A. Goodell +17 more
TL;DR: A comprehensive integrated genomic analysis of young and aged HSCs showed increased DNA methylation at transcription factor binding sites associated with differentiation-promoting genes combined with a reduction at genes associated with HSC maintenance, paralleling phenotypic HSC aging behavior.
Journal ArticleDOI
TET2 mutations predict response to hypomethylating agents in myelodysplastic syndrome patients.
Rafael Bejar,Allegra M. Lord,Kristen E. Stevenson,Michal Bar-Natan,Albert Perez-Ladaga,Jacques Zaneveld,Hui Wang,Bennett A. Caughey,Petar Stojanov,Gad Getz,Guillermo Garcia-Manero,Hagop M. Kantarjian,Rui Chen,Richard Stone,Donna Neuberg,David P. Steensma,Benjamin L. Ebert,Benjamin L. Ebert +17 more
TL;DR: Overall, Tet2 loss appears to sensitize cells to treatment with AZA in vivo, and TET2 mutations can identify patients more likely to respond to HMAs.
Journal ArticleDOI
Analysis of the Human Endogenous Coregulator Complexome
Anna Malovannaya,Rainer B. Lanz,Sung Yun Jung,Yaroslava Bulynko,Nguyen T. Le,Doug W. Chan,Chen Ding,Yi Shi,Nur Yucer,Giedre Krenciute,Beom-Jun Kim,Chunshu Li,Rui Chen,Wei Li,Yi Wang,Bert W. O'Malley,Jun Qin +16 more
TL;DR: A tiered interplay within networks that share common proteins is revealed, providing a conceptual organization of a cellular proteome composed of minimal endogenous modules (MEMOs), complex isoforms (uniCOREs), and regulatory complex-complex interaction networks (CCIs).