Hi,
We have received some human clinical RNA samples. We intend to seq them (Illumina HiSeq) to look for changes in gene expression (protein-coding genes as well as non-coding RNA). We checked the integrity of the RNA and found that quite a few of them are degraded (samples appear as smear on gel, cant even see the 2 ribosomal RNA bands).
The Q is: should we still seq these degraded RNA? I read about the RNase H and Ribo-Zero method which supposedly will work well for degraded RNA samples, but I am not sure if these methods are really good. I could potentially wait for a few more months to get more clinical samples, but of course it will delay the project.
Any advice? Would also like to hear from people who have tired RNase H or Ribo-zero method how their results are like compared to poly-A enriched method.
Thanks!
We have received some human clinical RNA samples. We intend to seq them (Illumina HiSeq) to look for changes in gene expression (protein-coding genes as well as non-coding RNA). We checked the integrity of the RNA and found that quite a few of them are degraded (samples appear as smear on gel, cant even see the 2 ribosomal RNA bands).
The Q is: should we still seq these degraded RNA? I read about the RNase H and Ribo-Zero method which supposedly will work well for degraded RNA samples, but I am not sure if these methods are really good. I could potentially wait for a few more months to get more clinical samples, but of course it will delay the project.
Any advice? Would also like to hear from people who have tired RNase H or Ribo-zero method how their results are like compared to poly-A enriched method.
Thanks!
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