Proteomics - gene covariates for iBAQ measurements.

Question

[Andrei Kucharavy]

I am currently looking into analyzing proteomics data, summarized as iBAQ counts.

One of the things I was wondering about was whether iBAQ counts for genes presented any covariation (such as for instance CG content in genes for sequencing). If yes, where the tables for such covariation can be found?

[Ahill]

iBAQ adjusts for number of observable peptides per protein, so I'm assuming correction for covariates like protein molecular weight or length is not required. Perhaps there are potential biases related to the number of peptides in any protein that are ultimately detectable in a mass spec assay but I'm not aware that anyone has tabulated technical covariates for iBAQ like this.