Question: Building A Combined Annotated Transcriptome To Use As A Reference Annotation In Rna-Seq Analysis
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Davide Degli Esposti • 80 wrote:
Dear all,
I am analyzing RNA-Seq data and I would like to compare my cufflinks
transcripts to an annotated transcriptome.
Following the steps described in the paper by Trapnell et al Nature
Biotechnology, 2010, I have read that authors ran cuffcompare against
a combined annotated transcriptomes of the UCSC known genes, Ensembl
and Vega.
My question is how do you build such a combined file? For the moment,
I was able just to compare my data with an annotated transcriptome
obtained only by UCSC.
I thank you for your help
Best regards
Davide Degli Esposti
Davide Degli Esposti, PhD
Epigenetic (EGE) Group
International Agency for Research on Cancer
Tel. +33 4 72738036
Fax. +33 4 72738322
150, cours Albert Thomas
69372 Lyon Cedex 08
France
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