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Old 01-28-2015, 07:49 AM   #1
Julien Roux
Location: Chicago

Join Date: Dec 2011
Posts: 24
Default Influence of quality of genome assembly for RNA-seq read mapping

Dear all,
I am wondering how much the quality of the reference genome assembly influences RNA-seq read mapping (for example Illumina reads mapped to the genome with Tophat). I could not find any published study addressing this question.

Do you know any paper where RNA-seq mapping rates and quality are compared between model species genomes, draft genomes and de novo assembled genomes?

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genome assembly, mapping, quality, rna-seq

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