期刊
BIOINFORMATICS
卷 30, 期 8, 页码 1172-1174出版社
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btt744
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资金
- NSERC PGS-D scholarship
- Career Development Award from the Dermatology Foundation
- Canadian Epigenetics, Environment and Health Research Consortium (CEEHRC)
- Canadian Institutes of Health Research (CIHR)
- Genome BC [EP2-120591]
The assessment of expression and epigenomic status using sequencing based methods provides an unprecedented opportunity to identify and correlate allelic differences with epigenomic status. We present ALEA, a computational toolbox for allele-specific epigenomics analysis, which incorporates allelic variation data within existing resources, allowing for the identification of significant associations between epigenetic modifications and specific allelic variants in human and mouse cells. ALEA provides a customizable pipeline of command line tools for allele-specific analysis of next-generation sequencing data (ChIP-seq, RNA-seq, etc.) that takes the raw sequencing data and produces separate allelic tracks ready to be viewed on genome browsers. The pipeline has been validated using human and hybrid mouse ChIP-seq and RNA-seq data.
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