U
Uwe Scherf
Researcher at Food and Drug Administration
Publications - 35
Citations - 20122
Uwe Scherf is an academic researcher from Food and Drug Administration. The author has contributed to research in topics: Gene expression profiling & Cancer. The author has an hindex of 22, co-authored 35 publications receiving 19372 citations. Previous affiliations of Uwe Scherf include Johns Hopkins University & National Institutes of Health.
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Journal ArticleDOI
Exploration, normalization, and summaries of high density oligonucleotide array probe level data
Rafael A. Irizarry,Bridget G. Hobbs,Francois Collin,Yasmin Beazer-Barclay,Kristen J. Antonellis,Uwe Scherf,Terence P. Speed +6 more
TL;DR: There is no obvious downside to using RMA and attaching a standard error (SE) to this quantity using a linear model which removes probe-specific affinities, and the exploratory data analyses of the probe level data motivate a new summary measure that is a robust multi-array average (RMA) of background-adjusted, normalized, and log-transformed PM values.
Journal ArticleDOI
Systematic variation in gene expression patterns in human cancer cell lines.
Douglas T. Ross,Uwe Scherf,Michael B. Eisen,Charles M. Perou,Christian A. Rees,Paul T. Spellman,Vishwanath R. Iyer,Stefanie S. Jeffrey,Matt van de Rijn,Mark Waltham,Alexander Pergamenschikov,Jeffrey C. Lee,Deval A. Lashkari,Dari Shalon,Timothy G. Myers,John N. Weinstein,David Botstein,Patrick O. Brown +17 more
TL;DR: Using cDNA microarrays to explore the variation in expression of approximately 8,000 unique genes among the 60 cell lines used in the National Cancer Institute's screen for anti-cancer drugs provided a novel molecular characterization of this important group of human cell lines and their relationships to tumours in vivo.
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 gene expression database for the molecular pharmacology of cancer
Uwe Scherf,Douglas T. Ross,Mark Waltham,Lawrence H. Smith,Jae K. Lee,Lorraine K. Tanabe,Kurt W. Kohn,William C. Reinhold,Timothy G. Myers,Darren T. Andrews,Dominic A. Scudiero,Michael B. Eisen,Edward A. Sausville,Yves Pommier,David Botstein,Patrick O. Brown,John N. Weinstein +16 more
TL;DR: Gene-drug relationships for the clinical agents 5-fluorouracil and L-asparaginase exemplify how variations in the transcript levels of particular genes relate to mechanisms of drug sensitivity and resistance.
Journal ArticleDOI
The Microarray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models
Leming Shi,Gregory Campbell,Wendell D. Jones,Fabien Campagne,Zhining Wen,Stephen J. Walker,Zhenqiang Su,Tzu Ming Chu,Federico Goodsaid,Lajos Pusztai,John D. Shaughnessy,André Oberthuer,Russell S. Thomas,Richard S. Paules,Mark R. Fielden,Bart Barlogie,Weijie Chen,Pan Du,Matthias Fischer,Cesare Furlanello,Brandon D. Gallas,Xijin Ge,Dalila B. Megherbi,W. Fraser Symmans,May D. Wang,John Zhang,Hans Bitter,Benedikt Brors,Pierre R. Bushel,Max Bylesjö,Minjun Chen,Jie Cheng,Jing Cheng,Jeff W. Chou,Timothy Davison,Mauro Delorenzi,Youping Deng,Viswanath Devanarayan,David J. Dix,Joaquín Dopazo,Kevin C. Dorff,Fathi Elloumi,Jianqing Fan,Shicai Fan,Xiaohui Fan,Hong Fang,Nina Gonzaludo,Kenneth R. Hess,Huixiao Hong,Jun Huan,Rafael A. Irizarry,Richard S. Judson,Dilafruz Juraeva,Samir Lababidi,Christophe G. Lambert,Li Li,Yanen Li,Zhen Li,Simon Lin,Guozhen Liu,Edward K. Lobenhofer,J. Luo,Wen Luo,Matthew N. McCall,Yuri Nikolsky,Gene Pennello,Roger Perkins,Reena Philip,Vlad Popovici,Nathan D. Price,Feng Qian,Andreas Scherer,Tieliu Shi,Weiwei Shi,Jaeyun Sung,Danielle Thierry-Mieg,Jean Thierry-Mieg,Venkata Thodima,Johan Trygg,Lakshmi Vishnuvajjala,Sue Jane Wang,Jianping Wu,Yichao Wu,Qian Xie,Waleed A. Yousef,Liang Zhang,Xuegong Zhang,Sheng Zhong,Yiming Zhou,Sheng Zhu,Dhivya Arasappan,Wenjun Bao,Anne Bergstrom Lucas,Frank Berthold,Richard J. Brennan,Andreas Buness,Jennifer G. Catalano,Chang Chang,Rong Chen,Yiyu Cheng,Jian Cui,Wendy Czika,Francesca Demichelis,Xutao Deng,Damir Dosymbekov,Roland Eils,Yang Feng,Jennifer Fostel,Stephanie Fulmer-Smentek,James C. Fuscoe,Laurent Gatto,Weigong Ge,Darlene R. Goldstein,Li Guo,Donald N. Halbert,Jing Han,Stephen C. Harris,Christos Hatzis,Damir Herman,Jianping Huang,Roderick V. Jensen,Rui Jiang,Charles D. Johnson,Giuseppe Jurman,Yvonne Kahlert,Sadik A. Khuder,Matthias Kohl,Jianying Li,Li Lee,Menglong Li,Quan Zhen Li,Shao Li,Zhiguang Li,Jie Liu,Ying Liu,Zhichao Liu,Lu Meng,Manuel Madera,Francisco Martinez-Murillo,Ignacio Medina,Joseph Meehan,K. Miclaus,Richard A. Moffitt,David Montaner,Piali Mukherjee,George Mulligan,Padraic Neville,Tatiana Nikolskaya,Baitang Ning,Grier P. Page,Joel S. Parker,R. Mitchell Parry,Xuejun Peng,Ron L. Peterson,John H. Phan,Brian Quanz,Yi Ren,Samantha Riccadonna,Alan H. Roter,Frank W. Samuelson,Martin Schumacher,Joseph D. Shambaugh,Qiang Shi,Richard Shippy,Shengzhu Si,Aaron Smalter,Christos Sotiriou,Mat Soukup,Frank Staedtler,Guido Steiner,Todd H. Stokes,Qinglan Sun,Pei Yi Tan,Rong Tang,Zivana Tezak,Brett T. Thorn,Marina Tsyganova,Yaron Turpaz,S. Vega,Roberto Visintainer,Juergen Von Frese,Charles Wang,Eric Wang,Junwei Wang,Wei Wang,Frank Westermann,James C. Willey,Matthew Woods,Shujian Wu,Nianqing Xiao,Joshua Xu,Lei Xu,Lun Yang,Xiao Zeng,Jialu Zhang,Li Zheng,Min Zhang,Chen Zhao,Raj K. Puri,Uwe Scherf,Weida Tong,Russell D. Wolfinger +201 more
TL;DR: P predictive models for classifying a sample with respect to one of 13 endpoints indicative of lung or liver toxicity in rodents, or of breast cancer, multiple myeloma or neuroblastoma in humans are generated.