Nature Biotechnology, volume 24, issue 9, pages 1151-1161
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
,
Françoise de Longueville
,
Ernest S. Kawasaki
,
Kathleen Y. Lee
,
Yuling Luo
,
Yongming Andrew Sun
,
James C. Willey
,
Robert A Setterquist
,
Gavin M. Fischer
,
Weida Tong
,
Yvonne P Dragan
,
David J. Dix
,
Felix W Frueh
,
Federico M. Goodsaid
,
DAMIR HERMAN
,
Roderick V. Jensen
,
Charles D. Johnson
,
Edward K. Lobenhofer
,
Raj K. Puri
,
Uwe Scherf
,
Jean Thierry Mieg
,
Charles Wang
,
Mike Wilson
,
Paul K Wolber
,
Lu Zhang
,
Shashi Amur
,
Wenjun Bao
,
Catalin C Barbacioru
,
Anne Bergstrom Lucas
,
Vincent Bertholet
,
Cecilie Boysen
,
Bud Bromley
,
Donna Brown
,
Alan Brunner
,
Roger Canales
,
Xiaoxi Megan Cao
,
Thomas A. Cebula
,
James J Chen
,
Tzu-Ming Chu
,
Eugene Chudin
,
John Corson
,
J. Christopher Corton
,
Lisa J. Croner
,
Christopher Davies
,
Timothy S Davison
,
Glenda Delenstarr
,
XUTAO DENG
,
David Dorris
,
Aron C. Eklund
,
Xiao Hui 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 C Harbottle
,
Stephen C Harris
,
Eli Hatchwell
,
Craig A. HAUSER
,
Susan Hester
,
Huixiao Hong
,
Patrick Hurban
,
Scott A Jackson
,
Hanlee Ji
,
Charles R. Knight
,
Winston P. Kuo
,
J. Eugene LeClerc
,
Shawn Levy
,
Quan‐Zhen Li
,
Ying Liu
,
Michael J. Lombardi
,
Yunqing Ma
,
Scott R. Magnuson
,
Botoul Maqsodi
,
Tim McDaniel
,
Nan Mei
,
Ola Myklebost
,
Baitang Ning
,
Natalia Novoradovskaya
,
Michael S Orr
,
Terry W. Osborn
,
Adam Papallo
,
Tucker A. Patterson
,
Roger G. Perkins
,
Elizabeth H. Peters
,
Ron Peterson
,
Kenneth L Philips
,
P. Scott Pine
,
Lajos Pusztai
,
Qian Feng
,
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
,
Živana Težak
,
Danielle Thierry-Mieg
,
Karol L. Thompson
,
Irina Tikhonova
,
Yaron Turpaz
,
Beena Vallanat
,
Christophe Van
,
Stephen J. Walker
,
Sue-Jane Wang
,
Yonghong Wang
,
Russ Wolfinger
,
Alex Wong
,
Jie Wu
,
Chunlin Xiao
,
Qian Xie
,
Jun Xu
,
Wen Yang
,
Liang Zhang
,
Sheng Zhong
,
Yaping Zong
,
William Slikker
Publication type: Journal Article
Publication date: 2006-09-01
Journal:
Nature Biotechnology
scimago Q1
SJR: 18.117
CiteScore: 63.0
Impact factor: 33.1
ISSN: 10870156, 15461696
DOI:
10.1038/nbt1239
PubMed ID:
16964229
Molecular Medicine
Applied Microbiology and Biotechnology
Biotechnology
Bioengineering
Biomedical Engineering
Abstract
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.
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