Evidence map›Paper›PMID 16964229›Full record

ArticleNature biotechnology2006

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

MAQC Consortium, 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 and 128 more

Registry-linked trialAbstract readComparative StudyEvaluation Study
In one paragraph

Article in Nature biotechnology, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. It is linked to trial NCT04138654 (Natural Compounds to Reduce Nitrite in Meat Products), which is not on this map. Cited by 982 papers.

0numbers the graph read from it
0cells of the map it votes in
982citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

NCT04138654 phase1completednot on this mapstarted 2014, after this paper: background citation

Natural Compounds to Reduce Nitrite in Meat Products: PHYTOME

TypeinterventionalSponsorMaastricht UniversityRan2014 to 2015Enrolled78ConditionsColon CancerArmsProcessed meat product, White meat wash-out, Processed meat products enriched with natural compounds, Drinking water containing nitrate up to acceptable daily intake level (ADI = 3.7 mg/kg bw) in combination with 300 grams of processed meat, white meat or processed meat enriched with natural compounds
3 · Its place in the literature

Who cites it

982 citing papers in PubMed.

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922 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

138 authors.

MAQC ConsortiumNational Center for Toxicological Research, US Food and Drug Administration, Jefferson, Arkansas 72079, USA.
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 A Setterquist
Gavin M Fischer
Weida Tong
Yvonne P Dragan
David J Dix
Felix W Frueh
Frederico M Goodsaid
Damir Herman
Roderick V Jensen
Charles D Johnson
Edward K Lobenhofer
Raj K Puri
Uwe Schrf
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
Jing Cheng
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
Chunmei Liu
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
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
Russ Wolfinger
Alex Wong
Jie Wu
Chunlin Xiao
Qian Xie
Jun Xu
Wen Yang
Liang Zhang
Sheng Zhong
Yaping Zong
William Slikker

Funding

Intramural NIH HHS Z99 CL999999Intramural NIH HHS Z99 HL999999Intramural NIH HHS Z99 LM999999Intramural NIH HHS Z99 MH999999
6 · The paper itself

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.

Indexed as

Equipment DesignEquipment Failure AnalysisGene Expression ProfilingOligonucleotide Array Sequence AnalysisQuality Assurance, Health CareQuality ControlReproducibility of ResultsSensitivity and SpecificityUnited States

Identifiers

PMID16964229
PMCPMC3272078

What OpenQuestion holds

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Registered trials

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.