GeneiASE: Detection of condition-dependent and static allele-specific expression from RNA-seq data without haplotype information.

ABSTRACT: Allele-specific expression (ASE) is the imbalance in transcription between maternal and paternal alleles at a locus and can be probed in single individuals using massively parallel DNA sequencing technology. Assessing ASE within a single sample provides a static picture of the ASE, but the magnitude of ASE for a given transcript may vary between different biological conditions in an individual. Such condition-dependent ASE could indicate a genetic variation with a functional role in the phenotypic difference. We investigated ASE through RNA-sequencing of primary white blood cells from eight human individuals before and after the controlled induction of an inflammatory response, and detected condition-dependent and static ASE at 211 and 13021 variants, respectively. We developed a method, G

SUBMITTER: Edsgard D 

PROVIDER: S-EPMC4758070 | biostudies-literature | 2016 Feb

REPOSITORIES: biostudies-literature