DrawGlycan-SNFG and gpAnnotate: rendering glycans and annotating glycopeptide mass spectra | Zendy

Kai Cheng | Zendy; Gabrielle Pawlowski | Zendy; Xinheng Yu | Zendy; Yusen Zhou | Zendy; Sriram Neelamegham | Zendy

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DrawGlycan-SNFG and gpAnnotate: rendering glycans and annotating glycopeptide mass spectra

Author(s) -

Kai Cheng,

Gabrielle Pawlowski,

Xinheng Yu,

Yusen Zhou,

Sriram Neelamegham

Publication year - 2019

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btz819

Subject(s) - glycoproteomics , computer science , python (programming language) , chemical nomenclature , software , programming language , java , glycomics , rendering (computer graphics) , glycan , glycopeptide , database , software engineering , data mining , computer graphics (images) , chemistry , biochemistry , glycoprotein , antibiotics , organic chemistry

This manuscript describes an open-source program, DrawGlycan-SNFG (version 2), that accepts IUPAC (International Union of Pure & Applied Chemist)-condensed inputs to render Symbol Nomenclature For Glycans (SNFG) drawings. A wide range of local and global options enable display of various glycan/peptide modifications including bond breakages, adducts, repeat structures, ambiguous identifications, etc. These facilities make DrawGlycan-SNFG ideal for integration into various glycoinformatics software, including glycomics and glycoproteomics mass spectrometry applications. As a demonstration of such usage, we incorporated DrawGlycan-SNFG into gpAnnotate, a standalone application to score and annotate individual MS/MS glycopeptide spectrum in different fragmentation modes.

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