L
Lei Guo
Researcher at National Center for Toxicological Research
Publications - 115
Citations - 8221
Lei Guo is an academic researcher from National Center for Toxicological Research. The author has contributed to research in topics: Endoplasmic reticulum & DNA damage. The author has an hindex of 39, co-authored 104 publications receiving 7466 citations. Previous affiliations of Lei Guo include Food and Drug Administration & Canadian Institutes of Health Research.
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Journal ArticleDOI
The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements
Leming Shi,Laura H. Reid,Wendell D. Jones,Richard Shippy,Janet A. Warrington,Shawn C. Baker,Patrick J. Collins,Francoise de Longueville,Ernest S. Kawasaki,Kathleen Y. Lee,Yuling Luo,Yongming Andrew Sun,James C. Willey,Robert Setterquist,Gavin M. Fischer,Weida Tong,Yvonne P. Dragan,David J. Dix,Felix W. Frueh,Federico Goodsaid,Damir Herman,Roderick V. Jensen,Charles D. Johnson,Edward K. Lobenhofer,Raj K. Puri,Uwe Scherf,Jean Thierry-Mieg,Charles Wang,Michael A Wilson,Paul K. Wolber,Lu Zhang,William Slikker,Shashi Amur,Wenjun Bao,Catalin Barbacioru,Anne Bergstrom Lucas,Vincent Bertholet,Cecilie Boysen,Bud Bromley,Donna Brown,Alan Brunner,Roger D. Canales,Xiaoxi Megan Cao,Thomas A. Cebula,James J. Chen,Jing Cheng,Tzu Ming Chu,Eugene Chudin,John F. Corson,J. Christopher Corton,Lisa J. Croner,Christopher Davies,Timothy Davison,Glenda C. Delenstarr,Xutao Deng,David Dorris,Aron Charles Eklund,Xiaohui Fan,Hong Fang,Stephanie Fulmer-Smentek,James C. Fuscoe,Kathryn Gallagher,Weigong Ge,Lei Guo,Xu Guo,Janet Hager,Paul K. Haje,Jing Han,Tao Han,Heather Harbottle,Stephen C. Harris,Eli Hatchwell,Craig A. Hauser,Susan D. Hester,Huixiao Hong,Patrick Hurban,Scott A. Jackson,Hanlee P. Ji,Charles R. Knight,Winston Patrick Kuo,J. Eugene LeClerc,Shawn Levy,Quan Zhen Li,Chunmei Liu,Ying Liu,Michael Lombardi,Yunqing Ma,Scott R. Magnuson,Botoul Maqsodi,Timothy K. McDaniel,Nan Mei,Ola Myklebost,Baitang Ning,Natalia Novoradovskaya,Michael S. Orr,Terry Osborn,Adam Papallo,Tucker A. Patterson,Roger Perkins,Elizabeth Herness Peters,Ron L. Peterson,Kenneth L. Philips,P. Scott Pine,Lajos Pusztai,Feng Qian,Hongzu Ren,Mitch Rosen,Barry A. Rosenzweig,Raymond R. Samaha,Mark Schena,Gary P. Schroth,Svetlana Shchegrova,Dave D. Smith,Frank Staedtler,Zhenqiang Su,Hongmei Sun,Zoltan Szallasi,Zivana Tezak,Danielle Thierry-Mieg,Karol L. Thompson,Irina Tikhonova,Yaron Turpaz,Beena Vallanat,Christophe Van,Stephen J. Walker,Sue Jane Wang,Yonghong Wang,Russell D. Wolfinger,Alexander Wong,Jie Wu,Chunlin Xiao,Qian Xie,Jun Xu,Wen Yang,Liang Zhang,Sheng Zhong,Yaping Zong +136 more
TL;DR: This study describes the experimental design and probe mapping efforts behind the MicroArray Quality Control project and shows intraplatform consistency across test sites as well as a high level of interplatform concordance in terms of genes identified as differentially expressed.
Journal ArticleDOI
A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium
Zhenqiang Su,Paweł P. Łabaj,Sheng Li,Jean Thierry-Mieg,Danielle Thierry-Mieg,Wei Shi,Charles Wang,Gary P. Schroth,Robert Setterquist,John F. Thompson,Wendell D. Jones,Wenzhong Xiao,Wenzhong Xiao,Weihong Xu,Roderick V. Jensen,Reagan Kelly,Joshua Xu,Ana Conesa,Cesare Furlanello,Hanlin Gao,Huixiao Hong,Nadereh Jafari,Stan Letovsky,Yang Liao,Fei Lu,Edward J. Oakeley,Zhiyu Peng,Craig A. Praul,Javier Santoyo-Lopez,Andreas Scherer,Tieliu Shi,Gordon K. Smyth,Frank Staedtler,Peter Sykacek,Xin Xing Tan,E. Aubrey Thompson,Jo Vandesompele,May D. Wang,Jian Wang,Russell D. Wolfinger,Jiri Zavadil,Jiri Zavadil,Scott S. Auerbach,Wenjun Bao,Hans Binder,Thomas M. Blomquist,Murray H. Brilliant,Pierre R. Bushel,Weimin Cai,Jennifer G. Catalano,Ching-Wei Chang,Tao Chen,Geng Chen,Rong Chen,Marco Chierici,Tzu Ming Chu,Djork-Arné Clevert,Youping Deng,Adnan Derti,Viswanath Devanarayan,Zirui Dong,Joaquín Dopazo,Tingting Du,Hong Fang,Yongxiang Fang,Mario Fasold,Anita Fernandez,Matthias Fischer,Pedro Furió-Tarí,James C. Fuscoe,Florian Caimet,Stan Gaj,Jorge Gandara,Huan Gao,Weigong Ge,Yoichi Gondo,Binsheng Gong,Meihua Gong,Zhuolin Gong,Bridgett Green,Chao Guo,Lei Guo,Li Wu Guo,James Hadfield,Jan Hellemans,Sepp Hochreiter,Meiwen Jia,Min Jian,Charles D. Johnson,Suzanne Kay,Jos C. S. Kleinjans,Samir Lababidi,Shawn Levy,Quan Zhen Li,Li Li,Peng Li,Yan Li,Haiqing Li,Jianying Li,Shiyong Li,Simon Lin,Francisco Javier López,Xin Lu,Heng Luo,Xiwen Ma,Joseph Meehan,Dalila B. Megherbi,Nan Mei,Bing Mu,Baitang Ning,Akhilesh Pandey,Javier Pérez-Florido,Roger Perkins,Ryan Peters,John H. Phan,Mehdi Pirooznia,Feng Qian,Tao Qing,Lucille Rainbow,Philippe Rocca-Serra,Laure Sambourg,Susanna-Assunta Sansone,Scott Schwartz,Ruchir R. Shah,Jie Shen,Todd M. Smith,Oliver Stegle,Nancy Stralis-Pavese,Elia Stupka,Yutaka Suzuki,Lee Thomas Szkotnicki,Matthew Tinning,Bimeng Tu,Joost H.M. van Delft,Alicia Vela-Boza,Elisa Venturini,Stephen J. Walker,Liqing Wan,Wei Wang,Jinhui Wang,Jun Wang,Jun Wang,Eric D. Wieben,James C. Willey,Po Yen Wu,Jiekun Xuan,Yong Yang,Zhan Ye,Ye Yin,Ying Yu,Yate Ching Yuan,John Zhang,Ke Zhang,Wenqian Zhang,Wenwei Zhang,Yanyan Zhang,Chen Zhao,Yuanting Zheng,Yiming Zhou,Paul Zumbo,Weida Tong,David P. Kreil,David P. Kreil,Christopher E. Mason,Leming Shi +164 more
TL;DR: The complete SEQC data sets, comprising >100 billion reads, provide unique resources for evaluating RNA-seq analyses for clinical and regulatory settings, and measurement performance depends on the platform and data analysis pipeline, and variation is large for transcript-level profiling.
Journal ArticleDOI
The balance of reproducibility, sensitivity, and specificity of lists of differentially expressed genes in microarray studies
Leming Shi,Wendell D. Jones,Roderick V. Jensen,Stephen C. Harris,Roger Perkins,Federico Goodsaid,Lei Guo,Lisa J. Croner,Cecilie Boysen,Hong Fang,Feng Qian,Shashi Amur,Wenjun Bao,Catalin Barbacioru,Vincent Bertholet,Xiaoxi Megan Cao,Tzu Ming Chu,Patrick J. Collins,Xiaohui Fan,Xiaohui Fan,Felix W. Frueh,James C. Fuscoe,Xu Guo,Jing Han,Damir Herman,Huixiao Hong,Ernest S. Kawasaki,Quan Zhen Li,Yuling Luo,Yunqing Ma,Nan Mei,Ron L. Peterson,Raj K. Puri,Richard Shippy,Zhenqiang Su,Yongming Andrew Sun,Hongmei Sun,Brett T. Thorn,Yaron Turpaz,Charles Wang,Sue Jane Wang,Janet A. Warrington,James C. Willey,Jie Wu,Qian Xie,Liang Zhang,Lu Zhang,Sheng Zhong,Russell D. Wolfinger,Weida Tong +49 more
TL;DR: The results provide practical guidance to choose the appropriate FC and P-value cutoffs when selecting a given number of DEGs and recommend the use of FC-ranking plus a non-stringent P cutoff as a straightforward and baseline practice in order to generate more reproducible DEG lists.
Journal ArticleDOI
Rat toxicogenomic study reveals analytical consistency across microarray platforms
Lei Guo,Edward K. Lobenhofer,Charles Wang,Richard Shippy,Stephen C. Harris,Lu Zhang,Nan Mei,Tao Chen,Damir Herman,Federico Goodsaid,Patrick Hurban,K. L. Phillips,Jun Xu,Xutao Deng,Yongming Andrew Sun,Weida Tong,Yvonne P. Dragan,Leming Shi +17 more
TL;DR: The real-world toxicogenomic data set reported here showed high concordance in intersite and cross-platform comparisons and gene lists generated by fold-change ranking were more reproducible than those obtained by t-test P value or Significance Analysis of Microarrays.
Journal ArticleDOI
A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages.
Ying Yu,James C. Fuscoe,Chen Zhao,Chao Guo,Meiwen Jia,Tao Qing,Desmond I. Bannon,Lee Lancashire,Wenjun Bao,Tingting Du,Heng Luo,Zhenqiang Su,Wendell D. Jones,Carrie L. Moland,William S. Branham,Feng Qian,Baitang Ning,Yan Li,Huixiao Hong,Lei Guo,Nan Mei,Tieliu Shi,Kevin Y. Wang,Russell D. Wolfinger,Yuri Nikolsky,Stephen J. Walker,Penelope J. Duerksen-Hughes,Christopher E. Mason,Weida Tong,Jean Thierry-Mieg,Danielle Thierry-Mieg,Leming Shi,Charles Wang +32 more
TL;DR: A comprehensive rat transcriptomic BodyMap is created by performing RNA-Seq on 320 samples from 11 organs of both sexes of juvenile, adolescent, adult and aged Fischer 344 rats, finding that organ-enriched, differentially expressed genes reflect the known organ-specific biological activities.