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PMID: 15068665 Published · ppublish English Comparative Study Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

ONCOMINE: a cancer microarray database and integrated data-mining platform.

Neoplasia (New York, N.Y.) ·Vol. 6 ·No. 1 ·2004-00-00 ·Pages 1-6

Rhodes DR, Yu J, Shanker K, Deshpande N, Varambally R, Ghosh D, Barrette T, Pandey A, Chinnaiyan AM

Abstract

DNA microarray technology has led to an explosion of oncogenomic analyses, generating a wealth of data and uncovering the complex gene expression patterns of cancer. Unfortunately, due to the lack of a unifying bioinformatic resource, the majority of these data sit stagnant and disjointed following publication, massively underutilized by the cancer research community. Here, we present ONCOMINE, a cancer microarray database and web-based data-mining platform aimed at facilitating discovery from genome-wide expression analyses. To date, ONCOMINE contains 65 gene expression datasets comprising nearly 48 million gene expression measurements form over 4700 microarray experiments. Differential expression analyses comparing most major types of cancer with respective normal tissues as well as a variety of cancer subtypes and clinical-based and pathology-based analyses are available for exploration. Data can be queried and visualized for a selected gene across all analyses or for multiple genes in a selected analysis. Furthermore, gene sets can be limited to clinically important annotations including secreted, kinase, membrane, and known gene-drug target pairs to facilitate the discovery of novel biomarkers and therapeutic targets.

MeSH Terms
Databases, Genetic Gene Expression Profiling Neoplasms/genetics Oligonucleotide Array Sequence Analysis Software
Authors & Affiliations
9 authors, click to expand affiliations / ORCID
Rhodes Daniel R
Department of Pathology, University of Michigan Medical School, Ann Arbor, MI 48109, USA.
Yu Jianjun
Shanker K
Deshpande Nandan
Varambally Radhika
Ghosh Debashis
Barrette Terrence
Pandey Akhilesh
Chinnaiyan Arul M
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Article Info
Journal
Neoplasia (New York, N.Y.)
Abbr.
Neoplasia
ISSN
1522-8002
DOI
10.1016/s1476-5586(04)80047-2
Published
2004-00-00
Pages
1-6
Language
English
Region
United States
NLM ID
100886622
PMCID
PMC1635162
Subset
IM
Grants
NIGMS NIH HHS · R01 GM072007 · United States
NIGMS NIH HHS · R01 GM072007-02 · United States
External Links
PubMed source DOI: 10.1016/s1476-5586(04)80047-2 PMC Full Text
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