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Estimate allelic imbalance
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13 months ago
sbombin • 10


I am trying to estimate allelic imbalance in C.remanei. Most of the methods that I found require to have separate maternal and paternal transcriptoms to estimate allilic imbalance based on SNPs. However, I have only one combined paternal transcriptom. Does anyone know how to estimate allelic imbalance and/or genetic imprinting with only combined paternal transcriptom? Could you suggest any publications where I could find useful information or any pipelines?

Thank you

Entering edit mode

If you only have one transcriptome then you're pretty much SOL. The best you can do is call variants against it, but then you're going to miss any paternal-specific expression.


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