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The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements

MAQC Consortium(Leming Shi ¹, Laura H Reid², Wendell D Jones², Richard Shippy³, Janet A Warrington⁴, Shawn C Baker⁵, Patrick J Collins⁶, Francoise de Longueville⁷, Ernest S Kawasaki⁸, Kathleen Y Lee⁹, Yuling Luo¹⁰, Yongming Andrew Sun⁹, James C Willey¹¹, Robert A Setterquist¹², Gavin M Fischer¹³, Weida Tong¹, Yvonne P Dragan¹, David J Dix¹⁴, Felix W Frueh¹⁵, Federico M Goodsaid¹⁵, Damir Herman¹⁶, Roderick V Jensen¹⁷, Charles D Johnson¹⁸, Edward K Lobenhofer¹⁹, Raj K Puri²⁰, Uwe Scherf²¹, Jean Thierry-Mieg¹⁶, Charles Wang²², Mike Wilson^12, 18, Paul K Wolber⁶, Lu Zhang^9, 23, Shashi Amur¹⁵, Wenjun Bao²⁴, Catalin C Barbacioru⁹, Anne Bergstrom Lucas⁶, Vincent Bertholet⁷, Cecilie Boysen²⁵, Bud Bromley²⁵, Donna Brown²⁶, Alan Brunner³, Roger Canales⁹, Xiaoxi Megan Cao²⁷, Thomas A Cebula²⁸, James J Chen¹, Jing Cheng²⁹, Tzu-Ming Chu²⁴, Eugene Chudin⁵, John Corson⁶, J Christopher Corton¹⁴, Lisa J Croner³⁰, Christopher Davies⁴, Timothy S Davison¹⁸, Glenda Delenstarr⁶, Xutao Deng²², David Dorris¹², Aron C Eklund¹⁷, Xiao-hui Fan¹, Hong Fang²⁷, Stephanie Fulmer-Smentek⁶, James C Fuscoe¹, Kathryn Gallagher³¹, Weigong Ge¹, Lei Guo¹, Xu Guo⁴, Janet Hager³², Paul K Haje³³, Jing Han²⁰, Tao Han¹, Heather C Harbottle³⁴, Stephen C Harris¹, Eli Hatchwell³⁵, Craig A Hauser³⁶, Susan Hester¹⁴, Huixiao Hong²⁷, Patrick Hurban¹⁹, Scott A Jackson²⁸, Hanlee Ji³⁷, Charles R Knight³⁸, Winston P Kuo³⁹, J Eugene LeClerc²⁸, Shawn Levy⁴⁰, Quan-Zhen Li⁴¹, Chunmei Liu⁴, Ying Liu⁴², Michael J Lombardi¹⁷, Yunqing Ma¹⁰, Scott R Magnuson⁴³, Botoul Maqsodi¹⁰, Tim McDaniel⁴, Nan Mei¹, Ola Myklebost⁴⁴, Baitang Ning¹, Natalia Novoradovskaya¹³, Michael S Orr¹⁵, Terry W Osborn³⁸, Adam Papallo¹⁷, Tucker A Patterson¹, Roger G Perkins²⁷, Elizabeth H Peters³⁸, Ron Peterson⁴⁵, Kenneth L Philips¹⁹, P Scott Pine¹⁵, Lajos Pusztai⁴⁶, Feng Qian²⁷, Hongzu Ren¹⁴, Mitch Rosen¹⁴, Barry A Rosenzweig¹⁵, Raymond R Samaha⁹, Mark Schena³³, Gary P Schroth²³, Svetlana Shchegrova⁶, Dave D Smith⁴⁷, Frank Staedtler⁴⁵, Zhenqiang Su¹, Hongmei Sun²⁷, Zoltan Szallasi⁴⁸, Zivana Tezak²¹, Danielle Thierry-Mieg¹⁶, Karol L Thompson¹⁵, Irina Tikhonova³², Yaron Turpaz⁴, Beena Vallanat¹⁴, Christophe Van⁷, Stephen J Walker⁴⁹, Sue Jane Wang¹⁵, Yonghong Wang⁸, Russ Wolfinger²⁴, Alex Wong⁶, Jie Wu²⁷, Chunlin Xiao⁹, Qian Xie²⁷, Jun Xu²², Wen Yang¹⁰, Liang Zhang²⁹, Sheng Zhong⁵⁰, Yaping Zong⁵¹ & William Slikker Jr¹)

Supplementary Table 1 (xls 48K)
cRNA Size and Yields Collected from Microarray Platforms

Supplementary Table 2 (txt 3M)
Genes-to-NM Accession List for All Probes

Supplementary Table 3 (txt 3M)
Most 3' Probe-to-NM Accession List for 23,971 Common Probes

Supplementary Table 4 (txt 2M)
One Probe-to-One Gene List for All Genes

Supplementary Table 5 (txt 1M)
One Probe-to-One Gene List for 12,091 Common Genes

Supplementary Methods (pdf 68K)
BLAST Analysis for the MAQC Project

Supplementary Notes (pdf 12K)
README for Probe Mapping Files

Supplementary Data (pdf 664K)
Supplementary Information on MAQC Study

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