The epiGenomic Efficient Correlator (epiGeEC) tool allows fast comparison of user datasets with thousands of public epigenomic datasets.
Journal
Bioinformatics (Oxford, England)
ISSN: 1367-4811
Titre abrégé: Bioinformatics
Pays: England
ID NLM: 9808944
Informations de publication
Date de publication:
15 02 2019
15 02 2019
Historique:
received:
11
01
2018
revised:
30
06
2018
accepted:
23
07
2018
pubmed:
28
7
2018
medline:
5
11
2019
entrez:
28
7
2018
Statut:
ppublish
Résumé
In recent years, major initiatives such as the International Human Epigenome Consortium have generated thousands of high-quality genome-wide datasets for a large variety of assays and cell types. This data can be used as a reference to assess whether the signal from a user-provided dataset corresponds to its expected experiment, as well as to help reveal unexpected biological associations. We have developed the epiGenomic Efficient Correlator (epiGeEC) tool to enable genome-wide comparisons of very large numbers of datasets. A public Galaxy implementation of epiGeEC allows comparison of user datasets with thousands of public datasets in a few minutes. The source code is available at https://bitbucket.org/labjacquespe/epigeec and the Galaxy implementation at http://epigeec.genap.ca. Supplementary data are available at Bioinformatics online.
Identifiants
pubmed: 30052804
pii: 5058096
doi: 10.1093/bioinformatics/bty655
pmc: PMC6378939
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
674-676Informations de copyright
© The Author(s) 2018. Published by Oxford University Press.
Références
Nucleic Acids Res. 2016 Jul 8;44(W1):W160-5
pubmed: 27079975
Nucleic Acids Res. 2013 Jan;41(Database issue):D991-5
pubmed: 23193258
Cell Syst. 2016 Nov 23;3(5):496-499.e2
pubmed: 27863956
Cell Rep. 2016 Nov 15;17(8):2137-2150
pubmed: 27851974
Cell. 2016 Nov 17;167(5):1145-1149
pubmed: 27863232
Bioinformatics. 2010 Sep 1;26(17):2204-7
pubmed: 20639541