Updates to the Symbol Nomenclature for Glycans guidelines

Author:

Neelamegham Sriram1,Aoki-Kinoshita Kiyoko2ORCID,Bolton Evan3ORCID,Frank Martin4,Lisacek Frederique5ORCID,Lütteke Thomas6,O’Boyle Noel7,Packer Nicolle H8,Stanley Pamela9,Toukach Philip10ORCID,Varki Ajit11,Woods Robert J12, ,Darvill Alan,Dell Anne,Henrissat Bernard,Bertozzi Carolyn,Hart Gerald,Narimatsu Hisashi,Freeze Hudson,Yamada Issaku,Paulson James,Prestegard James,Marth Jamey,Vliegenthart J F G,Etzler Marilynn,Aebi Markus,Kanehisa Minoru,Taniguchi Naoyuki,Edwards Nathan,Rudd Pauline,Seeberger Peter,Mazumder Raja,Ranzinger Rene,Cummings Richard,Schnaar Ronald,Perez Serge,Kornfeld Stuart,Kinoshita Taroh,York William,Knirel Yuriy

Affiliation:

1. Department of Chemical & Biological Engineering and Medicine, State University of New York, 906 Furnas Hall, Buffalo, NY 14260, USA

2. Glycan & Life System Integration Center (GaLSIC), Faculty of Science and Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo 192-8577, Japan

3. National Library of Medicine, 8600 Rockville Pike, Bldg. 38A, Room 8S810, Bethesda, MD 20896, USA

4. Biognos AB, Generatorsgatan 1 / Box 8963, 402 74 Göteborg, Sweden

5. Proteome Informatics Group, SIB Swiss Institute of Bioinformatics, Computer Science Department, University of Geneva, route de Drize 7, CH - 1227 Geneva Switzerland, and also Section of Biology, University of Geneva, Geneva, Switzerland

6. GIP GmbH, Strahlenberger Str. 112, 63067 Offenbach, Germany

7. NextMove Software, Innovation Centre, Cambridge Science Park, Milton Road, Cambridge, CB4 0EY, UK

8. Department of Molecular Sciences, Faculty of Science & Engineering, Rm 307, Building E8C, Macquarie University, Sydney, NSW 2109, Australia

9. Department of Cell Biology, Albert Einstein College of Medicine, 1300 Morris Park Ave, New York, NY, 10461, USA

10. Laboratory of Carbohydrate Chemistry, Zelinsky Institute of Organic Chemistry, Russian Academy of Sciences. 119991 Moscow, Leninsky prospect 47, Russia

11. Glycobiology Research and Training Center, University of California, San Diego, La Jolla, CA 92093, USA

12. Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Rd, Athens, GA, 30602, USA

Abstract

Abstract The Symbol Nomenclature for Glycans (SNFG) is a community-curated standard for the depiction of monosaccharides and complex glycans using various colored-coded, geometric shapes, along with defined text additions. It is hosted by the National Center for Biotechnology Information (NCBI) at the NCBI-Glycans Page (www.ncbi.nlm.nih.gov/glycans/snfg.html). Several changes have been made to the SNFG page in the past year to update the rules for depicting glycans using the SNFG, to include more examples of use, particularly for non-mammalian organisms, and to provide guidelines for the depiction of ambiguous glycan structures. This Glycoforum article summarizes these recent changes.

Funder

National Institutes of Health

Russian Science Foundation

Swiss National Science Foundation

Research Data Australia

Japan Science and Technology Agency

National Bioscience Database Center

Publisher

Oxford University Press (OUP)

Subject

Biochemistry

Reference26 articles.

1. SugarSketcher: Quick and intuitive online glycan drawing;Alocci;Molecules,2018

2. Glycosciences.DB: An annotated data collection linking glycomics and proteomics data (2018 update);Bohm;Nucleic Acids Res,2019

3. Validation of the curation pipeline of UniCarb-DB: Building a global glycan reference MS/MS repository;Campbell;Biochim Biophys Acta,2014

4. DrawGlycan-SNFG: A robust tool to render glycans and glycopeptides with fragmentation information;Cheng;Glycobiology,2017

5. MatrixDB: Integration of new data with a focus on glycosaminoglycan interactions;Clerc;Nucleic Acids Res,2019

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