Allelic imbalance metre (Allim), a new tool for measuring allele-specific gene expression with RNA-seq data.
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ABSTRACT:
SUBMITTER: Pandey RV
PROVIDER: S-EPMC3739924 | biostudies-literature | 2013 Jul
REPOSITORIES: biostudies-literature
Publications
Allelic imbalance metre (Allim), a new tool for measuring allele-specific gene expression with RNA-seq data.
Pandey Ram Vinay RV Franssen Susanne U SU Futschik Andreas A Schlötterer Christian C
Molecular ecology resources 20130425 4
Estimating differences in gene expression among alleles is of high interest for many areas in biology and medicine. Here, we present a user-friendly software tool, Allim, to estimate allele-specific gene expression. Because mapping bias is a major problem for reliable estimates of allele-specific gene expression using RNA-seq, Allim combines two different strategies to account for the mapping biases. In order to reduce the mapping bias, Allim first generates a polymorphism-aware reference genome ...[more]
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