Hello all,
I am new to RNA-seq analysis, trying to decide whether to do single-end or paired-end RNA seq for the purpose of differential expression and alternative splicing.
We use the Illumina Genome Analyzer IIx and intend to analyse the reads using Tophat and Cufflinks.
- Would you recommend single-end or paired-end?
- Which read length would you recommend, 2x36 or more?
Thanks
Reut
I am new to RNA-seq analysis, trying to decide whether to do single-end or paired-end RNA seq for the purpose of differential expression and alternative splicing.
We use the Illumina Genome Analyzer IIx and intend to analyse the reads using Tophat and Cufflinks.
- Would you recommend single-end or paired-end?
- Which read length would you recommend, 2x36 or more?
Thanks
Reut
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