Dataset Information

Semantic integration of data on transcriptional regulation.

ABSTRACT:

Motivation

Experimental and predicted data concerning gene transcriptional regulation are distributed among many heterogeneous sources. However, there are no resources to integrate these data automatically or to provide a 'one-stop shop' experience for users seeking information essential for deciphering and modeling gene regulatory networks.

Results

IntegromeDB, a semantic graph-based 'deep-web' data integration system that automatically captures, integrates and manages publicly available data concerning transcriptional regulation, as well as other relevant biological information, is proposed in this article. The problems associated with data integration are addressed by ontology-driven data mapping, multiple data annotation and heterogeneous data querying, also enabling integration of the user's data. IntegromeDB integrates over 100 experimental and computational data sources relating to genomics, transcriptomics, genetics, and functional and interaction data concerning gene transcriptional regulation in eukaryotes and prokaryotes.

Availability

IntegromeDB is accessible through the integrated research environment BiologicalNetworks at http://www.BiologicalNetworks.org

Contact

baitaluk@sdsc.edu

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Baitaluk M

PROVIDER: S-EPMC2887046 | biostudies-literature | 2010 Jul

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Semantic integration of data on transcriptional regulation.

Baitaluk Michael M Ponomarenko Julia J

Bioinformatics (Oxford, England) 20100428 13

<h4>Motivation</h4>Experimental and predicted data concerning gene transcriptional regulation are distributed among many heterogeneous sources. However, there are no resources to integrate these data automatically or to provide a 'one-stop shop' experience for users seeking information essential for deciphering and modeling gene regulatory networks.<h4>Results</h4>IntegromeDB, a semantic graph-based 'deep-web' data integration system that automatically captures, integrates and manages publicly a ...[more]

PMID: 20427517

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Dataset Information

Semantic integration of data on transcriptional regulation.

Motivation

Results

Availability

Contact

Supplementary information

Publications

Semantic integration of data on transcriptional regulation.

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