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pFindStudio / pGlyco2

pGlyco is a software tool dedicated for the analysis of intact glycopeptides/glycoproteins using mass spectrometry.
http://pfind.ict.ac.cn/software/pGlyco/
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N-Glycan database for human sample #33

Open lonelu opened 5 years ago

lonelu commented 5 years ago

The N-glycan database used in pGlyco2 contains all 5 types of sugar: H N A G F. I am recently analyzing a dataset originated from human sample, G is not likely to be included in the identified glycans. Even though very rare, glycans containing G are still identified by pGlyco. FDR works but I guess the situation depends on the scale of the study. In one case, both 5 4 2 0 1 and 4 4 1 1 2 are identified, which have the same mass. Is that possible to use a human only N-glycan database? (filter out glycans in the database containing G)

jalew188 commented 5 years ago

In the current version, the only way to produce human-specific database is to remove all G-related structures in pGlyco.gdb file.