How to quantification proteomics data
I am new to the proteomics data，I find it difficult to understand the method of protein group quantification. I use maxquant to quantify TMT11 mass spectrometry data. In the proteinGroups file, I found that there are many proteins in the same line.
Majority protein IDs
In RNA-seq, we will discard duplicate mappings. reads, how do we deal with these peptides matched to protein groups in mass spectrometry?,
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