Oysterseed DIA - trying to characterize list of detected proteins in relation to _C. gigas_ proteome
I’m still working on wrapping up the results and discussion of this paper. Steven recommended I look into characterizing the list of detected proteins (2,808) in relation to the whole C. gigas proteome. Detailed in post:
DAVID (from 9/27/19 post)
Resulting file: david-diffex-proteome.txt
Excel to pare down DAVID results:
Steven recommended only looking at DAVID GO IDs that had <0.05 FDR.
New list –> 108 GO IDs
I put the 108 GO IDs and their respective fold enrichment values into REViGO (0.7 allowed similarity; numbers associated with GO terms are other than -pvalues, where larger is better) and got the following:
I put them in the paper in the results section and basically said that the most enriched GO processes were to do with general functioning and growth…
I’ve been woring on clarifying things in the Methods, and working on the discussion. All still very much “work in progress”.