The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements. Academic Article uri icon


  • Over the last decade, the introduction of microarray technology has had a profound impact on gene expression research. The publication of studies with dissimilar or altogether contradictory results, obtained using different microarray platforms to analyze identical RNA samples, has raised concerns about the reliability of this technology. The MicroArray Quality Control (MAQC) project was initiated to address these concerns, as well as other performance and data analysis issues. Expression data on four titration pools from two distinct reference RNA samples were generated at multiple test sites using a variety of microarray-based and alternative technology platforms. Here we describe the experimental design and probe mapping efforts behind the MAQC project. We show intraplatform consistency across test sites as well as a high level of interplatform concordance in terms of genes identified as differentially expressed. This study provides a resource that represents an important first step toward establishing a framework for the use of microarrays in clinical and regulatory settings.

published proceedings

  • Nat Biotechnol

altmetric score

  • 30.776

author list (cited authors)

  • MAQC Consortium, .., Shi, L., Reid, L. H., Jones, W. D., Shippy, R., Warrington, J. A., ... Slikker, W.

citation count

  • 1785

complete list of authors

  • Shi, Leming||Reid, Laura H||Jones, Wendell D||Shippy, Richard||Warrington, Janet A||Baker, Shawn C||Collins, Patrick J||de Longueville, Francoise||Kawasaki, Ernest S||Lee, Kathleen Y||Luo, Yuling||Sun, Yongming Andrew||Willey, James C||Setterquist, Robert A||Fischer, Gavin M||Tong, Weida||Dragan, Yvonne P||Dix, David J||Frueh, Felix W||Goodsaid, Frederico M||Herman, Damir||Jensen, Roderick V||Johnson, Charles D||Lobenhofer, Edward K||Puri, Raj K||Schrf, Uwe||Thierry-Mieg, Jean||Wang, Charles||Wilson, Mike||Wolber, Paul K||Zhang, Lu||Amur, Shashi||Bao, Wenjun||Barbacioru, Catalin C||Lucas, Anne Bergstrom||Bertholet, Vincent||Boysen, Cecilie||Bromley, Bud||Brown, Donna||Brunner, Alan||Canales, Roger||Cao, Xiaoxi Megan||Cebula, Thomas A||Chen, James J||Cheng, Jing||Chu, Tzu-Ming||Chudin, Eugene||Corson, John||Corton, J Christopher||Croner, Lisa J||Davies, Christopher||Davison, Timothy S||Delenstarr, Glenda||Deng, Xutao||Dorris, David||Eklund, Aron C||Fan, Xiao-hui||Fang, Hong||Fulmer-Smentek, Stephanie||Fuscoe, James C||Gallagher, Kathryn||Ge, Weigong||Guo, Lei||Guo, Xu||Hager, Janet||Haje, Paul K||Han, Jing||Han, Tao||Harbottle, Heather C||Harris, Stephen C||Hatchwell, Eli||Hauser, Craig A||Hester, Susan||Hong, Huixiao||Hurban, Patrick||Jackson, Scott A||Ji, Hanlee||Knight, Charles R||Kuo, Winston P||LeClerc, J Eugene||Levy, Shawn||Li, Quan-Zhen||Liu, Chunmei||Liu, Ying||Lombardi, Michael J||Ma, Yunqing||Magnuson, Scott R||Maqsodi, Botoul||McDaniel, Tim||Mei, Nan||Myklebost, Ola||Ning, Baitang||Novoradovskaya, Natalia||Orr, Michael S||Osborn, Terry W||Papallo, Adam||Patterson, Tucker A||Perkins, Roger G||Peters, Elizabeth H||Peterson, Ron||Philips, Kenneth L||Pine, P Scott||Pusztai, Lajos||Qian, Feng||Ren, Hongzu||Rosen, Mitch||Rosenzweig, Barry A||Samaha, Raymond R||Schena, Mark||Schroth, Gary P||Shchegrova, Svetlana||Smith, Dave D||Staedtler, Frank||Su, Zhenqiang||Sun, Hongmei||Szallasi, Zoltan||Tezak, Zivana||Thierry-Mieg, Danielle||Thompson, Karol L||Tikhonova, Irina||Turpaz, Yaron||Vallanat, Beena||Van, Christophe||Walker, Stephen J||Wang, Sue Jane||Wang, Yonghong||Wolfinger, Russ||Wong, Alex||Wu, Jie||Xiao, Chunlin||Xie, Qian||Xu, Jun||Yang, Wen||Zhang, Liang||Zhong, Sheng||Zong, Yaping||Slikker, William

publication date

  • September 2006