More than one proteins in one row in mass spectrometry data
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15 months ago
Wang Cong ▴ 10

I have a matrix for whole cell mass spectrometry data. I found that many rows have more than one protein. I am new to proteomics. May I ask the reason behind this?

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proteomics mass_spectrometry • 550 views
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Entering edit mode
15 months ago
ATpoint 83k

It is a multimapper. Mass spec involves digestion of proteins into peptides first before running HPLC and the actual MS. If several proteins have conserved/similar/same peptide sequences then they can map ambiguously. In typical RNA-seq and similar assays multimappers are often discarded. Your choice what you do.

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