title: D-peaks: a visual tool to display ChIP-seq peaks along the genome.
abstract: ChIP-sequencing is a method of choice to localize the positions of protein binding sites on DNA on a whole genomic scale. The deciphering of the sequencing data produced by this novel technique is challenging and it is achieved by their rigorous interpretation using dedicated tools and adapted visualization programs. Here, we present a bioinformatics tool (D-peaks) that adds several possibilities (including, user-friendliness, high-quality, relative position with respect to the genomic features) to the well-known visualization browsers or databases already existing. D-peaks is directly available through its web interface http://rsat.ulb.ac.be/dpeaks/ as well as a command line tool.
authors.affiliation: Machine Learning Group, Computer Science Department, Faculté des Sciences, Université Libre de Bruxelles, Brussels, Belgium. sbrohee@ulb.ac.be
authors.forename: Sylvain
authors.initials: S
authors.lastname: Brohée
authors.forename: Gianluca
authors.initials: G
authors.lastname: Bontempi
mesh_terms: D000818:Animals; D001665:Binding Sites; D047369:Chromatin Immunoprecipitation; D019295:Computational Biology / Q000379:methods*; D004247:DNA / Q000378:metabolism; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D011485:Protein Binding; D017422:Sequence Analysis, DNA; D012984:Software
chemical_list: D004247:DNA
keywords: ChIPseq; bioinformatics; high-throughput sequencing; transcription factor; visualization