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Old 06-29-2016, 08:45 AM   #1
perporia2013
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Location: canada

Join Date: Apr 2014
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Unhappy what type of data about miRNA i can extract from RIP-SEQ raw file?

Hi, bioinfo fanatics there!
I am a newbie. I was able to work with very simple example raw files long time ago and I have forgotten things
here is the example that has already thoroughly analysed in the regarding paper in this link http://www.ncbi.nlm.nih.gov/geo/quer...i?acc=GSE25032
The thing that I was interested is that is it possible to extract reads of miRNA from the raw file here? sth that I can't recall even a bit.
if you look the file GSM614808_tdp43_processed.txt.gz you will find processed data showing the target sites of RNA binding protein to different locations on rat genome. what I want to find exactly is that which site mentioned in this list overlaps with already annotated miRNA sites on rat genome. I have no idea how and where to start.
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