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Removing ~200 different transcripts from total RNA pool

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#1 Ahrenhase



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Posted 22 October 2013 - 10:18 AM

I was going to mix antisense oligos, directed against the start codon region of the mRNAs I want to remove, and RNase H into purified total ply(A) mRNA.  I'm thinking this approach is a bit sloppy, though, and I'd have to validate ~200 oligos. I was wondering if there was an easier way:


My transcriptome of interest contains roughly 15000 different transcripts, so piecing together a new transcriptome, without the 200 transcripts I want to remove, isn't feasible.

Edited by Ahrenhase, 22 October 2013 - 10:19 AM.

#2 bob1


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Posted 22 October 2013 - 12:26 PM

How about binding oligos to beads and then pulling down?

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