Is removing rRNAs, tRNAs, etc really a necessary step in the miRNA analysis?
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4 months ago
tianshenbio ▴ 120

I have some small RNA seq data to analyze miRNAs . I trimmed the adaptors, selected reads of 18-25 nt, mapped the reads to the genome, detected novel and conserved miRNAs using mirdeep2. I’ve already done DE analysis and target predictions. However, I realized that I did not remove rRBAs, tRNAs, mRNAs, and other types of ncRNAs. I know I can filter them out using the Rfam and NCBI databese. But is it really a necessary step to filter them out? It will take me a long time to do these analysis.

miRNA mirdeep2 gene RNA-seq RNA • 136 views

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