Journal
NUCLEIC ACIDS RESEARCH
Volume 49, Issue D1, Pages D104-D111Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkaa1057
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Funding
- Russian Science Foundation [19-14-00295, 20-74-10075]
- Ministry of Science and Higher Education of the Russian Federation [075-15-2019-1658]
- Russian Science Foundation [19-14-00295, 20-74-10075] Funding Source: Russian Science Foundation
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The Gene Transcription Regulation Database (GTRD) contains uniformly annotated NGS data related to gene transcription regulation and provides an integrated view of transcription regulation through a dedicated web interface with advanced browsing and search capabilities.
The Gene Transcription Regulation Database (GTRD; http://gtrd.biouml.org/) contains uniformly annotated and processed NGS data related to gene transcription regulation: ChIP-seq, ChIP-exo, DNase-seq, MNase-seq, ATAC-seq and RNA-seq. With the latest release, the database has reached a new level of data integration. All cell types (cell lines and tissues) presented in the GTRD were arranged into a dictionary and linked with different ontologies (BRENDA, Cell Ontology, Uberon, Cellosaurus and Experimental Factor Ontology) and with related experiments in specialized databases on transcription regulation (FANTOM5, ENCODE and GTEx). The updated version of the GTRD provides an integrated view of transcription regulation through a dedicated web interface with advanced browsing and search capabilities, an integrated genome browser, and table reports by cell types, transcription factors, and genes of interest.
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