Document Detail


Data submission and quality in microarray-based microRNA profiling.
MedLine Citation:
PMID:  23358751     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
BACKGROUND: Public sharing of scientific data has assumed greater importance in the omics era. Transparency is necessary for confirmation and validation, and multiple examiners aid in extracting maximal value from large data sets. Accordingly, database submission and provision of the Minimum Information About a Microarray Experiment (MIAME)(3) are required by most journals as a prerequisite for review or acceptance.
METHODS: In this study, the level of data submission and MIAME compliance was reviewed for 127 articles that included microarray-based microRNA (miRNA) profiling and were published from July 2011 through April 2012 in the journals that published the largest number of such articles--PLOS ONE, the Journal of Biological Chemistry, Blood, and Oncogene--along with articles from 9 other journals, including Clinical Chemistry, that published smaller numbers of array-based articles.
RESULTS: Overall, data submission was reported at publication for <40% of all articles, and almost 75% of articles were MIAME noncompliant. On average, articles that included full data submission scored significantly higher on a quality metric than articles with limited or no data submission, and studies with adequate description of methods disproportionately included larger numbers of experimental repeats. Finally, for several articles that were not MIAME compliant, data reanalysis revealed less than complete support for the published conclusions, in 1 case leading to retraction.
CONCLUSIONS: These findings buttress the hypothesis that reluctance to share data is associated with low study quality and suggest that most miRNA array investigations are underpowered and/or potentially compromised by a lack of appropriate reporting and data submission.
Authors:
Kenneth W Witwer
Publication Detail:
Type:  Journal Article; Review    
Journal Detail:
Title:  Clinical chemistry     Volume:  59     ISSN:  1530-8561     ISO Abbreviation:  Clin. Chem.     Publication Date:  2013 Feb 
Date Detail:
Created Date:  2013-01-29     Completed Date:  2013-05-13     Revised Date:  2013-05-13    
Medline Journal Info:
Nlm Unique ID:  9421549     Medline TA:  Clin Chem     Country:  United States    
Other Details:
Languages:  eng     Pagination:  392-400     Citation Subset:  IM    
Copyright Information:
© 2012 American Association for Clinical Chemistry
Affiliation:
Department of Molecular and Comparative Pathobiology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. kwitwer1@jhmi.edu
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MeSH Terms
Descriptor/Qualifier:
Biological Markers / analysis
Gene Expression Profiling*
Humans
Information Dissemination*
MicroRNAs / analysis,  biosynthesis*,  genetics
Oligonucleotide Array Sequence Analysis*
Periodicals as Topic*
Research Design*
Grant Support
ID/Acronym/Agency:
R01 NS076357/NS/NINDS NIH HHS
Chemical
Reg. No./Substance:
0/Biological Markers; 0/MicroRNAs
Comments/Corrections
Comment In:
Clin Chem. 2013 Mar;59(3):459-61   [PMID:  23340443 ]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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