Is it possible to infer from miRNA-seq fastq data which species it is obtained from?

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2.8 years ago

Apprentice ▴ 170

I am analyzing human miRNA-seq data. I have done mapping with HISAT2 or STAR, but I am having trouble because the mapping rate is very low, 10-30%.

I am even thinking that maybe this is not human RNA, but RNA data from other organisms. So, I would like to ask, is it possible to estimate from the fastq data of miRNA-seq which species it is obtained from?

miRNA-seq • 1.1k views

ADD COMMENT • link 2.8 years ago by Apprentice ▴ 170

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Has it been trimmed properly and what reference did you align against?

ADD REPLY • link 2.8 years ago by ATpoint 85k

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also a quick comparison with annotated human miRNAs in miRbase can verify the origin

ADD REPLY • link 2.8 years ago by JC 13k

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Sorry for the lack of study, but how do I do that?

ADD REPLY • link 2.8 years ago by Apprentice ▴ 170

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I'm sorry for late reply. Of cource, I trimmed properly. I confrimed that I used GRCh38 as a reference genome.

ADD REPLY • link 2.8 years ago by Apprentice ▴ 170

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