Searching journal content for Rui Chen in author.

Displaying results 1-10 of 14
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  1. Research: Integrating short-read and long-read single-cell RNA sequencing for comprehensive transcriptome profiling in mouse retina
    • Meng Wang,
    • Yumei Li,
    • Jun Wang,
    • Soo Hwan Oh,
    • Yexuan Cao,
    • and Rui Chen
    Genome Res. April 2025 35: 740-754; Published in Advance March 6, 2025, doi:10.1101/gr.279167.124
  2. Method: A deconvolution framework that uses single-cell sequencing plus a small benchmark data set for accurate analysis of cell type ratios in complex tissue samples
    • Shuai Guo,
    • Xiaoqian Liu,
    • Xuesen Cheng,
    • Yujie Jiang,
    • Shuangxi Ji,
    • Qingnan Liang,
    • Andrew Koval,
    • Yumei Li,
    • Leah A. Owen,
    • Ivana K. Kim,
    • Ana Aparicio,
    • Sanghoon Lee,
    • Anil K. Sood,
    • Scott Kopetz,
    • John Paul Shen,
    • John N. Weinstein,
    • Margaret M. DeAngelis,
    • Rui Chen,
    • and Wenyi Wang
    Genome Res. January 2025 35: 147-161; Published in Advance November 25, 2024, doi:10.1101/gr.278822.123
    OPEN ACCESS ARTICLE
  3. Research: The population genomics of rhesus macaques (Macaca mulatta) based on whole-genome sequences
    • Cheng Xue,
    • Muthuswamy Raveendran,
    • R. Alan Harris,
    • Gloria L. Fawcett,
    • Xiaoming Liu,
    • Simon White,
    • Mahmoud Dahdouli,
    • David Rio Deiros,
    • Jennifer E. Below,
    • William Salerno,
    • Laura Cox,
    • Guoping Fan,
    • Betsy Ferguson,
    • Julie Horvath,
    • Zach Johnson,
    • Sree Kanthaswamy,
    • H. Michael Kubisch,
    • Dahai Liu,
    • Michael Platt,
    • David G. Smith,
    • Binghua Sun,
    • Eric J. Vallender,
    • Feng Wang,
    • Roger W. Wiseman,
    • Rui Chen,
    • Donna M. Muzny,
    • Richard A. Gibbs,
    • Fuli Yu,
    • and Jeffrey Rogers
    Genome Res. December 2016 26: 1651-1662; Published in Advance October 17, 2016, doi:10.1101/gr.204255.116
    OPEN ACCESS ARTICLE
  4. Method: Integrative subcellular proteomic analysis allows accurate prediction of human disease-causing genes
    • Li Zhao,
    • Yiyun Chen,
    • Amol Onkar Bajaj,
    • Aiden Eblimit,
    • Mingchu Xu,
    • Zachry T. Soens,
    • Feng Wang,
    • Zhongqi Ge,
    • Sung Yun Jung,
    • Feng He,
    • Yumei Li,
    • Theodore G. Wensel,
    • Jun Qin,
    • and Rui Chen
    Genome Res. May 2016 26: 660-669; Published in Advance February 24, 2016, doi:10.1101/gr.198911.115
  5. Method: Large-scale identification of chemically induced mutations in Drosophila melanogaster
    • Nele A. Haelterman,
    • Lichun Jiang,
    • Yumei Li,
    • Vafa Bayat,
    • Hector Sandoval,
    • Berrak Ugur,
    • Kai Li Tan,
    • Ke Zhang,
    • Danqing Bei,
    • Bo Xiong,
    • Wu-Lin Charng,
    • Theodore Busby,
    • Adeel Jawaid,
    • Gabriela David,
    • Manish Jaiswal,
    • Koen J.T. Venken,
    • Shinya Yamamoto,
    • Rui Chen,
    • and Hugo J. Bellen
    Genome Res. October 2014 24: 1707-1718; Published in Advance September 25, 2014, doi:10.1101/gr.174615.114
  6. Research: Nucleosome fragility reveals novel functional states of chromatin and poises genes for activation
    • Yuanxin Xi,
    • Jianhui Yao,
    • Rui Chen,
    • Wei Li,
    • and Xiangwei He
    Genome Res. May 2011 21: 718-724; Published in Advance March 1, 2011, doi:10.1101/gr.117101.110
  7. Resource: The Drosophila melanogaster transcriptome by paired-end RNA sequencing
    • Bryce Daines,
    • Hui Wang,
    • Liguo Wang,
    • Yumei Li,
    • Yi Han,
    • David Emmert,
    • William Gelbart,
    • Xia Wang,
    • Wei Li,
    • Richard Gibbs,
    • and Rui Chen
    Genome Res. February 2011 21: 315-324; Published in Advance December 22, 2010, doi:10.1101/gr.107854.110
  8. Method: Rapid identification of heterozygous mutations in Drosophila melanogaster using genomic capture sequencing
    • Hui Wang,
    • Abanti Chattopadhyay,
    • Zhe Li,
    • Bryce Daines,
    • Yumei Li,
    • Chunxu Gao,
    • Richard Gibbs,
    • Kun Zhang,
    • and Rui Chen
    Genome Res. July 2010 20: 981-988; Published in Advance May 14, 2010, doi:10.1101/gr.102921.109
  9. ARTICLE: Genome-wide identification of direct targets of the Drosophila retinal determination protein Eyeless
    • Edwin J. Ostrin,
    • Yumei Li,
    • Kristi Hoffman,
    • Jing Liu,
    • Keqing Wang,
    • Li Zhang,
    • Graeme Mardon,
    • and Rui Chen
    Genome Res. April 2006 16: 466-476; Published in Advance March 13, 2006, doi:10.1101/gr.4673006
  10. ARTICLE: Comparative genome sequencing of Drosophila pseudoobscura: Chromosomal, gene, and cis-element evolution
    • Stephen Richards,
    • Yue Liu,
    • Brian R. Bettencourt,
    • Pavel Hradecky,
    • Stan Letovsky,
    • Rasmus Nielsen,
    • Kevin Thornton,
    • Melissa J. Hubisz,
    • Rui Chen,
    • Richard P. Meisel,
    • Olivier Couronne,
    • Sujun Hua,
    • Mark A. Smith,
    • Peili Zhang,
    • Jing Liu,
    • Harmen J. Bussemaker,
    • Marinus F. van Batenburg,
    • Sally L. 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 Scott,
    • David Steffen,
    • David A. Wheeler,
    • Kim C. Worley,
    • Paul Havlak,
    • K. James Durbin,
    • Amy Egan,
    • Rachel Gill,
    • Jennifer Hume,
    • Margaret B. Morgan,
    • George Miner,
    • Cerissa Hamilton,
    • Yanmei Huang,
    • Lenée Waldron,
    • Daniel Verduzco,
    • Kerstin P. Clerc-Blankenburg,
    • Inna Dubchak,
    • Mohamed A.F. Noor,
    • Wyatt Anderson,
    • Kevin P. White,
    • Andrew G. Clark,
    • Stephen W. Schaeffer,
    • William Gelbart,
    • George M. Weinstock,
    • and Richard A. Gibbs
    Genome Res. January 2005 15: 1-18; doi:10.1101/gr.3059305
    OPEN ACCESS ARTICLE
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