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PMID: 12194703 Published · epublish English Comparative Study Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S. Research Support, U.S. Gov't, P.H.S.

Microarray results: how accurate are they?

BMC bioinformatics ·Vol. 3 ·2002-08-23 ·Pages 22

Kothapalli R, Yoder SJ, Mane S, Loughran TP

Abstract

DNA microarray technology is a powerful technique that was recently developed in order to analyze thousands of genes in a short time. Presently, microarrays, or chips, of the cDNA type and oligonucleotide type are available from several sources. The number of publications in this area is increasing exponentially. In this study, microarray data obtained from two different commercially available systems were critically evaluated. Our analysis revealed several inconsistencies in the data obtained from the two different microarrays. Problems encountered included inconsistent sequence fidelity of the spotted microarrays, variability of differential expression, low specificity of cDNA microarray probes, discrepancy in fold-change calculation and lack of probe specificity for different isoforms of a gene. In view of these pitfalls, data from microarray analysis need to be interpreted cautiously.

MeSH Terms
Alleles Cells, Cultured Computational Biology/standards,trends DNA, Complementary/genetics Gene Expression Profiling/standards,trends Gene Expression Regulation, Enzymologic/genetics Gene Expression Regulation, Neoplastic/genetics Genes, Neoplasm/genetics Granzymes Humans Leukemia, Lymphoid/enzymology,genetics Leukocytes, Mononuclear/chemistry,pathology,physiology Oligonucleotide Array Sequence Analysis/standards,trends RNA, Messenger/blood RNA, Neoplasm/blood,genetics Reproducibility of Results Sensitivity and Specificity Serine Endopeptidases/genetics
Chemicals
DNA, Complementary RNA, Messenger RNA, Neoplasm GZMB protein, human GZMH protein, human Granzymes Serine Endopeptidases
Authors & Affiliations
4 authors, click to expand affiliations / ORCID
Kothapalli Ravi
Hematologic Malignancies, Molecular Oncology and Clinical Investigations Programs, Department of Interdisciplinary Oncology Program, H, Lee Moffitt Cancer Center and Research Institute. [email protected]
Yoder Sean J
Mane Shrikant
Loughran Thomas P
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Article Info
Journal
BMC bioinformatics
Abbr.
BMC Bioinformatics
ISSN
1471-2105
DOI
10.1186/1471-2105-3-22
Email
[email protected]
Published
2002-08-23
Epub
2002-00-23
Pages
22
Language
English
Region
England
NLM ID
100965194
PMCID
PMC126254
Subset
IM
Grants
NCI NIH HHS · CA83947 · United States
NCI NIH HHS · CA90633 · United States
PHS HHS · G60203 · United States
External Links
PubMed source DOI: 10.1186/1471-2105-3-22 PMC Full Text View journal details
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