2-AIN-506, 2-AIN-252: Seminar in Bioinformatics (2), (4)
Summer 2025
Abstrakt

Rob Patro, Geet Duggal, Michael I. Love, Rafael A. Irizarry, Carl Kingsford. Salmon provides fast and bias-aware quantification of transcript expression. Nature methods, 14(4):417-419. 2017.

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Download from publisher: https://www.nature.com/articles/nmeth.4197 PubMed

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Abstract:

We introduce Salmon, a lightweight method for quantifying transcript abundance 
from RNA-seq reads. Salmon combines a new dual-phase parallel inference algorithm 
and feature-rich bias models with an ultra-fast read mapping procedure. It is the 
first transcriptome-wide quantifier to correct for fragment GC-content bias, 
which, as we demonstrate here, substantially improves the accuracy of abundance 
estimates and the sensitivity of subsequent differential expression analysis.