Towards a Standardized Bioinformatics Infrastructure for N- and O-glycomics

Overview

Journal Nat Commun

Specialty Biology

Date 2019 Jul 24

PMID 31332201

Citations 50

Authors

Miguel A Rojas-Macias

Julien Mariethoz

Peter Andersson

Chunsheng Jin

Vignesh Venkatakrishnan

Nobuyuki P Aoki

Daisuke Shinmachi

Christopher Ashwood

Katarina Madunic

Tao Zhang

Rebecca L Miller

Oliver Horlacher

Weston B Struwe

Yu Watanabe

Shujiro Okuda

Fredrik Levander

Daniel Kolarich

Pauline M Rudd

Manfred Wuhrer

Carsten Kettner

Nicolle H Packer

Kiyoko F Aoki-Kinoshita

Frederique Lisacek

Niclas G Karlsson

Affiliations

Soon will be listed here.

Abstract

The mass spectrometry (MS)-based analysis of free polysaccharides and glycans released from proteins, lipids and proteoglycans increasingly relies on databases and software. Here, we review progress in the bioinformatics analysis of protein-released N- and O-linked glycans (N- and O-glycomics) and propose an e-infrastructure to overcome current deficits in data and experimental transparency. This workflow enables the standardized submission of MS-based glycomics information into the public repository UniCarb-DR. It implements the MIRAGE (Minimum Requirement for A Glycomics Experiment) reporting guidelines, storage of unprocessed MS data in the GlycoPOST repository and glycan structure registration using the GlyTouCan registry, thereby supporting the development and extension of a glycan structure knowledgebase.

Citing Articles

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