Paper Info
Title
ConceptGen: a gene set enrichment and gene set relation mapping tool
Abstract
Motivation: The elucidation of biological concepts enriched with differentially expressed genes has become an integral part of the analysis and interpretation of genomic data. Of additional importance is the ability to explore networks of relationships among previously defined biological concepts from diverse information sources, and to explore results visually from multiple perspectives. Accomplishing these tasks requires a unified framework for agglomeration of data from various genomic resources, novel visualizations, and user functionality. Results: We have developed ConceptGen, a web-based gene set enrichment and gene set relation mapping tool that is streamlined and simple to use. ConceptGen offers over 20 000 concepts comprising 14 different types of biological knowledge, including data not currently available in any other gene set enrichment or gene set relation mapping tool. We demonstrate the functionalities of ConceptGen using gene expression data modeling TGF-beta-induced epithelial-mesenchymal transition and metabolomics data comparing metastatic versus localized prostate cancers.
Year
DOI
Venue
2010
10.1093/bioinformatics/btp683
BIOINFORMATICS
Field
DocType
Volume
Data modeling,Data mining,Gene,Computer science,Gene mapping,Default gateway,Software,Bioinformatics,Health informatics,Gene regulatory network,Gene expression profiling
Journal
26
Issue
ISSN
Citations 
4
1367-4803
18
PageRank 
References 
Authors
1.36
10
12
Name
Order
Citations
PageRank
Maureen A. Sartor115610.06
Vasudeva Mahavisno2442.95
Venkateshwar G. Keshamouni3181.36
James D. Cavalcoli4775.34
Zach Wright524918.76
Alla Karnovsky6514.66
Rork Kuick7553.61
H. V. Jagadish8111412495.67
Barbara Mirel915216.94
Terry E. Weymouth10439125.44
Brian D. Athey1130622.13
Gilbert S. Omenn121078.45