Naslov
Splice isoform identification from transcript graphs

Autori
Pavlović, Dario

Vrsta, podvrsta i kategorija rada
Ocjenski radovi, diplomski rad, diplomski

Fakultet
Fakultet elektrotehnike i računarstva

Mjesto
Zagreb

Datum
03.06

Godina
2015

Stranica
48

Mentor
Šikić, Mile

Ključne riječi
rna-seq; abundance estimation; em algorithm

Sažetak
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.

Izvorni jezik
Engleski

Znanstvena područja
Računarstvo

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