Ribosomal cDNA depletion

[rnaseq0814]

If I understand correctly, a lot of the kits for ribosomal RNA depletion kits use antisense oligos to bind and deplete ribosomal RNAs.

Would it be possible to alternatively deplete ribosomal cDNAs instead?

[ZWB]

You can deplete rRNA at the cDNA level if you use a technique like DSN (double-stranded nuclease) or HAC (hydroxyapatite chromatography). We published a paper a while back about HAC, showing high levels of rRNA depletion using both techniques.

http://www.ncbi.nlm.nih.gov/pubmed/23227988

[JonahN]

Hi!
You can try the PureRec Duplex-Specific Nuclease (DSN) from Zymo Research (E1020S, E1020-200, E1020-1000). It can reduce abundant rRNA and globin transcripts for NGS libraries and is selective to digest only dsDNA while leaving the ssDNA or RNA alone. Check it out and I hope it helps!