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D-peaks: A visual tool to display ChIP-seq peaks along the genome
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 visua...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Landes Bioscience
2012
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3632623/ https://www.ncbi.nlm.nih.gov/pubmed/23132505 http://dx.doi.org/10.4161/trns.22457 |
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author | Brohée, Sylvain Bontempi, Gianluca |
author_facet | Brohée, Sylvain Bontempi, Gianluca |
author_sort | Brohée, Sylvain |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-3632623 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | Landes Bioscience |
record_format | MEDLINE/PubMed |
spelling | pubmed-36326232013-04-25 D-peaks: A visual tool to display ChIP-seq peaks along the genome Brohée, Sylvain Bontempi, Gianluca Transcription Short Article 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. Landes Bioscience 2012-09-01 2012-09-01 /pmc/articles/PMC3632623/ /pubmed/23132505 http://dx.doi.org/10.4161/trns.22457 Text en Copyright © 2012 Landes Bioscience http://creativecommons.org/licenses/by-nc/3.0/ This is an open-access article licensed under a Creative Commons Attribution-NonCommercial 3.0 Unported License. The article may be redistributed, reproduced, and reused for non-commercial purposes, provided the original source is properly cited. |
spellingShingle | Short Article Brohée, Sylvain Bontempi, Gianluca D-peaks: A visual tool to display ChIP-seq peaks along the genome |
title | D-peaks: A visual tool to display ChIP-seq peaks along the genome |
title_full | D-peaks: A visual tool to display ChIP-seq peaks along the genome |
title_fullStr | D-peaks: A visual tool to display ChIP-seq peaks along the genome |
title_full_unstemmed | D-peaks: A visual tool to display ChIP-seq peaks along the genome |
title_short | D-peaks: A visual tool to display ChIP-seq peaks along the genome |
title_sort | d-peaks: a visual tool to display chip-seq peaks along the genome |
topic | Short Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3632623/ https://www.ncbi.nlm.nih.gov/pubmed/23132505 http://dx.doi.org/10.4161/trns.22457 |
work_keys_str_mv | AT broheesylvain dpeaksavisualtooltodisplaychipseqpeaksalongthegenome AT bontempigianluca dpeaksavisualtooltodisplaychipseqpeaksalongthegenome |