Review/Tutorial on microRNA analysis

dariober · 07-05-2013, 08:59 AM

Hi All,

I'm about to be involved in the analysis of microRNAs prepared and sequenced through the Illumina microRNA kit. I have experience with the bioinformatics of other types of analyses (RNA-Seq, ChiPSeq etc.) but never done microRNA.

So I was after some tutorial or review on the subject that you guys could recommend. I did some basic search on Google/PubMed/SEQanswers but I couldn't find anything particularly enlightening, so any advice much welcome.

In general I would like to see some guidelines about tools, assessing data quality (did the library preps work well, how many reads should be sequenced, what should a fastqc output look like) and processing (adapter trimming, alignment to genome or to miRNA database?). For now we are working on model species and we are not interested in discovering new microRNAs, we just want to sequence and quantify them.

Many thanks!

Dario

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07-05-2013, 08:59 AM	#1
dariober Senior Member Location: Cambridge, UK Join Date: May 2010 Posts: 311	Review/Tutorial on microRNA analysis Hi All, I'm about to be involved in the analysis of microRNAs prepared and sequenced through the Illumina microRNA kit. I have experience with the bioinformatics of other types of analyses (RNA-Seq, ChiPSeq etc.) but never done microRNA. So I was after some tutorial or review on the subject that you guys could recommend. I did some basic search on Google/PubMed/SEQanswers but I couldn't find anything particularly enlightening, so any advice much welcome. In general I would like to see some guidelines about tools, assessing data quality (did the library preps work well, how many reads should be sequenced, what should a fastqc output look like) and processing (adapter trimming, alignment to genome or to miRNA database?). For now we are working on model species and we are not interested in discovering new microRNAs, we just want to sequence and quantify them. Many thanks! Dario