title: oPOSSUM-3: advanced analysis of regulatory motif over-representation across genes or ChIP-Seq datasets.
abstract: oPOSSUM-3 is a web-accessible software system for identification of over-represented transcription factor binding sites (TFBS) and TFBS families in either DNA sequences of co-expressed genes or sequences generated from high-throughput methods, such as ChIP-Seq. Validation of the system with known sets of co-regulated genes and published ChIP-Seq data demonstrates the capacity for oPOSSUM-3 to identify mediating transcription factors (TF) for co-regulated genes or co-recovered sequences. oPOSSUM-3 is available at http://opossum.cisreg.ca.
authors.affiliation: Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, University of British Columbia, Vancouver, British Columbia, V5Z 4H4, Canada.
authors.forename: Andrew T
authors.initials: AT
authors.lastname: Kwon
authors.forename: David J
authors.initials: DJ
authors.lastname: Arenillas
authors.forename: Rebecca
authors.initials: R
authors.lastname: Worsley Hunt
authors.forename: Wyeth W
authors.initials: WW
authors.lastname: Wasserman
mesh_terms: D000818:Animals; D001482:Base Composition; D001665:Binding Sites; D047369:Chromatin Immunoprecipitation; D002923:Cilia / Q000235:genetics; D019295:Computational Biology / Q000379:methods*; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D020407:Internet; D018482:Muscle, Skeletal / Q000378:metabolism; D009348:Nematoda / Q000235:genetics; D059372:Nucleotide Motifs; D012045:Regulatory Sequences, Nucleic Acid; D012984:Software; D014157:Transcription Factors / Q000378:metabolism
chemical_list: D014157:Transcription Factors