title: CTCFBSDB 2.0: a database for CTCF-binding sites and genome organization.
abstract: CTCF is a highly conserved transcriptional regulator protein that performs diverse functions such as regulating gene expression and organizing the 3D structure of the genome. Here, we describe recent updates to a database of CTCF-binding sites, CTCFBSDB (http://insulatordb.uthsc.edu/), which now contains almost 15 million CTCF-binding sequences in 10 species. Since the original publication of the database, studies of the 3D structure of the genome, such as those provided by Hi-C experiments, have suggested that CTCF plays an important role in mediating intra- and inter-chromosomal interactions. To reflect this important progress, we have integrated CTCF-binding sites with genomic topological domains defined using Hi-C data. Additionally, the updated database includes new features enabled by new CTCF-binding site data, including binding site occupancy and the ability to visualize overlapping CTCF-binding sites determined in separate experiments.
authors.affiliation: Department of Microbiology, University of Tennessee Health Science Center, Memphis, TN 38163, USA.
authors.forename: Jesse D
authors.initials: JD
authors.lastname: Ziebarth
authors.forename: Anindya
authors.initials: A
authors.lastname: Bhattacharya
authors.forename: Yan
authors.initials: Y
authors.lastname: Cui
mesh_terms: D000818:Animals; D001665:Binding Sites; D000076246:CCCTC-Binding Factor; D002843:Chromatin / Q000737:chemistry; D030541:Databases, Genetic; D004285:Dogs; D016678:Genome; D006801:Humans; D038101:Insulator Elements; D020407:Internet; D051379:Mice; D058977:Molecular Sequence Annotation; D059372:Nucleotide Motifs; D051381:Rats; D012097:Repressor Proteins / Q000378:metabolism*; D059467:Transcriptome
chemical_list: D000076246:CCCTC-Binding Factor; C000619697:CTCF protein, human; D002843:Chromatin; C000619698:Ctcf protein, mouse; D012097:Repressor Proteins