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mhammell-laboratory / TEtranscripts

A package for including transposable elements in differential enrichment analysis of sequencing datasets.
http://hammelllab.labsites.cshl.edu/software/#TEtranscripts
GNU General Public License v3.0
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Using TEtranscripts on data from rare disease patients #153

Closed ChiaraF32 closed 7 months ago

ChiaraF32 commented 8 months ago

Hi,

I was just wondering if I can use your TEtranscripts tools to search for TE transcripts in patients affected with rare disease.

Would I just run the analysis using the patient RNAseq as the "treatment" sample and an age/tissue-matched control sample for "control"?

Thanks! Chiara

olivertam commented 8 months ago

Hi Chiara,

Thank you for your interest in the software. I think it's theoretically possible. However, it might be very difficult if you don't have many replicates, as most differential analyses need them to determine the expression variability within a group in order to better identify significant changes.

Thanks.

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