Dataset Information

Re-analysis of glycoproteomics data with MSFragger-Glyco

ABSTRACT: Reanalysis of submissions PXD011533 and PXD009476 using MSFragger-Glyco mode. Processed MSFragger results files (pepXML) and PSM tables (psm.tsv) supporting MSFragger-Glyco manuscript (Fast and Comprehensive N- and O-glycoproteomics analysis with MSFragger-Glyco. Recent advances in methods for enrichment and mass spectrometric analysis of intact glycopeptides have produced large-scale glycoproteomics datasets, but interpreting this data remains challenging. We present MSFragger-Glyco, aa new glycoproteomics mode of the MSFragger search engine, called MSFragger-Glyco, for fast and sensitive identification of N- and O-linked glycopeptides and open glycan searches. Reanalysis of recent N-glycoproteomics data resulted in annotation of 80% more glycopeptide-spectrum matches (glycoPSMs) than previously reported. In published O-glycoproteomics data, our method more than doubled the number of glycoPSMs annotated when searching the same glycans as the original search and yielded 4-6-fold increases when expanding searches to include additional glycan compositions and other modifications. Expanded searches also revealed many sulfated and complex glycans that remained hidden to the original search.

INSTRUMENT(S): Orbitrap Fusion Lumos, Q Exactive HF

ORGANISM(S): Homo Sapiens (human) Mus Musculus (mouse)

TISSUE(S): Brain, T Cell, Blood Serum, Kidney

SUBMITTER: Daniel Polasky

LAB HEAD: Alexey Nesvizhskii

PROVIDER: PXD021196 | Pride | 2020-10-06

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	180222_KidneyNormal_F1.pepXML	Pepxml
	180222_KidneyNormal_F1.raw	Raw
	180222_KidneyNormal_F10.pepXML	Pepxml
	180222_KidneyNormal_F10.raw	Raw
	180222_KidneyNormal_F11.pepXML	Pepxml

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Re-analysis of glycoproteomics data with MSFragger-Glyco

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