engleski

Splice isoform identification from transcript graphs

Providing a measure of abundances of different RNA transcripts in a sample can be very important in many different biological or medical studies. Next-generation sequencing is becoming a technology of choice for providing fundamental data for such analyses. In this work, I have presented an RNA abundance estimation model that uses next-generation RNA-Seq reads to estimate optimal relative transcript abundance values. isomorph, a software implementation of this method is presented and explained. isomorph tries to maximize a likelihood function with regards to isoform abundance levels to provide an optimal estimate of relative transcript abundances in a sample. Testing has shown that for single-end reads, isomorph performs well, while paired-end data performance should be more improved. It is available at https://github.com/darxsys/isomorph.

rna-seq; abundance estimation; em algorithm

nije evidentirano