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Old 04-29-2020, 04:52 AM   #1
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Location: Suisse

Join Date: Apr 2020
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Default How to compare two datasets

I'm new in this community.
I have to compare 2 differents RNA-SEQ datasets (whole transcriptome sequencing by Illumina). Samples are prepared by the same way (PAXGene tube and same extraction system), but 1 dataset have been done by strand protocol with ribo depletion and polyA selection ; and the other dataset have been done by standard protocol and ribo depletion but no polyA enrichement.
Do you think it's possible to find a way to "compare" these data? We try to find robust list of housekeeping genes, what we you think and is there a list existing to us?
For 1 dataset (the first one) we have sequenced UHRR reference RNA.

Thank to help me!
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