Related Experiment Video
Updated: Jun 13, 2026

Describing a Transcription Factor Dependent Regulation of the MicroRNA Transcriptome
Published on: June 15, 2016
Semantic integration of data on transcriptional regulation
Michael Baitaluk1, Julia Ponomarenko
1San Diego Supercomputer Center, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA. baitaluk@sdsc.edu
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.
More Related Videos
12:54Real-time Analysis of Transcription Factor Binding, Transcription, Translation, and Turnover to Display Global Events During Cellular Activation
Published on: March 7, 2018
13:48Discovering CsgD Regulatory Targets in Salmonella Biofilm Using Chromatin Immunoprecipitation and High-Throughput Sequencing (ChIP-seq)
Published on: January 18, 2020
Related Concept Videos
Master Transcription Regulators
Master Transcription Regulators
Cis-regulatory Sequences
Cis-regulatory Sequences
Regulation of Expression at Multiple Steps
Cooperative Binding of Transcription Regulators