lncRNA identification from RNAseq data
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8 months ago
pipe_cvm2 • 0

Hello,

I have some Zea mays rna data that I have analised for Differentially expressed genes, aligned with HISAT2,stingtie etc

Now I am interested in identifiying lncRNA sequences out of all the transcripts aligned. My data was polyA enriched, so it´ll be biased but I think it might be interesting to see the result.

Any tips on how to extract the lncRNA out of all the transcripts aligned? I believe that with stringtie files and gffcompare would be possible to extract the lncRNAs but I´m not sure where to start.

Any help is appreciated. Many thanks, Felipe

lncrna rna RNA-Seq hisat2 stringtie • 294 views
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Do you want to identify novel non-coding RNAs or just pull out the lncs form existing annotations, so basically a GTF file?

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