Edward comments on RNA-Seq section

DimmestP / chimera_project_manuscript

1 stars 2 forks source link

Edward comments on RNA-Seq section #212

Closed DimmestP closed 2 years ago

DimmestP commented 2 years ago

poly(A) site spelling used throughout
substantial edits explaining rationale and controls
started separate paragraph on 5PSeq

DimmestP commented 2 years ago

[ ] Add QuantSeq Rev protocol reference
[x] check number of reads on each construct
[x] supplementary figure comparing sample correlation
[x] compare native and construct WT poly(A) sites (for both 5PSeq and Quantseq)
[x] reference to 5PSeq paper

DimmestP commented 2 years ago

[x] selection of native genes Poly(A) site usage across samples

DimmestP commented 2 years ago

Do we have a link to the QuantSeq Rev protocol? @ewallace

ewallace commented 2 years ago

I think we just have to say "using the Quant-Seq REV kit from Lexogen (Lexogen Gmbh, Vienna Austria)." See https://doi.org/10.1016/bs.mie.2021.03.020 - it is a commercial protocol and I didn't find an academic citation for it.

DimmestP commented 2 years ago

Ok, Ill add that.