DENdb: database of integrated human enhancers

Handle URI:
http://hdl.handle.net/10754/579721
Title:
DENdb: database of integrated human enhancers
Authors:
Ashoor, Haitham ( 0000-0003-2527-0317 ) ; Kleftogiannis, Dimitrios A. ( 0000-0003-1086-821X ) ; Radovanovic, Aleksandar; Bajic, Vladimir B. ( 0000-0001-5435-4750 )
Abstract:
Enhancers are cis-acting DNA regulatory regions that play a key role in distal control of transcriptional activities. Identification of enhancers, coupled with a comprehensive functional analysis of their properties, could improve our understanding of complex gene transcription mechanisms and gene regulation processes in general. We developed DENdb, a centralized on-line repository of predicted enhancers derived from multiple human cell-lines. DENdb integrates enhancers predicted by five different methods generating an enriched catalogue of putative enhancers for each of the analysed cell-lines. DENdb provides information about the overlap of enhancers with DNase I hypersensitive regions, ChIP-seq regions of a number of transcription factors and transcription factor binding motifs, means to explore enhancer interactions with DNA using several chromatin interaction assays and enhancer neighbouring genes. DENdb is designed as a relational database that facilitates fast and efficient searching, browsing and visualization of information.
KAUST Department:
Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
Citation:
DENdb: database of integrated human enhancers 2015, 2015:bav085 Database
Publisher:
Oxford University Press (OUP)
Journal:
Database
Issue Date:
5-Sep-2015
DOI:
10.1093/database/bav085
Type:
Article
ISSN:
1758-0463
Additional Links:
http://database.oxfordjournals.org/lookup/doi/10.1093/database/bav085
Appears in Collections:
Articles; Computational Bioscience Research Center (CBRC); Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorAshoor, Haithamen
dc.contributor.authorKleftogiannis, Dimitrios A.en
dc.contributor.authorRadovanovic, Aleksandaren
dc.contributor.authorBajic, Vladimir B.en
dc.date.accessioned2015-10-15T11:43:48Zen
dc.date.available2015-10-15T11:43:48Zen
dc.date.issued2015-09-05en
dc.identifier.citationDENdb: database of integrated human enhancers 2015, 2015:bav085 Databaseen
dc.identifier.issn1758-0463en
dc.identifier.doi10.1093/database/bav085en
dc.identifier.urihttp://hdl.handle.net/10754/579721en
dc.description.abstractEnhancers are cis-acting DNA regulatory regions that play a key role in distal control of transcriptional activities. Identification of enhancers, coupled with a comprehensive functional analysis of their properties, could improve our understanding of complex gene transcription mechanisms and gene regulation processes in general. We developed DENdb, a centralized on-line repository of predicted enhancers derived from multiple human cell-lines. DENdb integrates enhancers predicted by five different methods generating an enriched catalogue of putative enhancers for each of the analysed cell-lines. DENdb provides information about the overlap of enhancers with DNase I hypersensitive regions, ChIP-seq regions of a number of transcription factors and transcription factor binding motifs, means to explore enhancer interactions with DNA using several chromatin interaction assays and enhancer neighbouring genes. DENdb is designed as a relational database that facilitates fast and efficient searching, browsing and visualization of information.en
dc.language.isoenen
dc.publisherOxford University Press (OUP)en
dc.relation.urlhttp://database.oxfordjournals.org/lookup/doi/10.1093/database/bav085en
dc.rightsThis is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.en
dc.titleDENdb: database of integrated human enhancersen
dc.typeArticleen
dc.contributor.departmentComputational Bioscience Research Center (CBRC)en
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Divisionen
dc.identifier.journalDatabaseen
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorAshoor, Haithamen
kaust.authorKleftogiannis, Dimitrios A.en
kaust.authorRadovanovic, Aleksandaren
kaust.authorBajic, Vladimir B.en
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