How do we ensure low abundant proteins seen in a proteome with as low as 1 PSM (peptide spectral match) are real and are indeed a part of the sample, not contaminants?
Also, please suggest what steps can be taken at each stage of mass spectrometry based proteomics for efficient Q
Read moreDavid Tabb Answered Sep 12, 2022
"One-Hit Wonders" (proteins supported by a single spectrum, are definitely more likely to be falsely identified than those with many different peptides. If you need to ensure that the peptide is genuine and not an artifact, I would ensure that your identified spectrum looks like previously identified ones for that peptide.
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