Haplotype and isoform specific expression estimation using multi-mapping RNA-seq reads

摘要: We present a novel pipeline and methodology for simultaneously estimating isoform expression allelic imbalance in diploid organisms using RNA-seq data. achieve this by modeling the of haplotype-specific isoforms. If unknown, two parental sequences can be individually reconstructed. A new statistical method, MMSEQ, deconvolves mapping reads to multiple transcripts (isoforms or isoforms). Our software take into account non-uniform read generation works with paired-end reads.