Navigating the glycome space and connecting the glycoproteome

Matthew P. Campbell, Robyn A. Peterson, Elisabeth Gasteiger, Julien Mariethoz, Frederique Lisacek, Nicolle H. Packer*

*Corresponding author for this work

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)

Abstract

UniCarbKB (http://unicarbkb.org) is a comprehensive resource for mammalian glycoprotein and annotation data. In particular, the database provides information on the oligosaccharides characterized from a glycoprotein at either the global or site-specific level. This evidence is accumulated from a peer-reviewed and manually curated collection of information on oligosaccharides derived from membrane and secreted glycoproteins purified from biological fluids and/or tissues. This information is further supplemented with experimental method descriptions that summarize important sample preparation and analytical strategies. A new release of UniCarbKB is published every three months, each includes a collection of curated data and improvements to database functionality. In this Chapter, we outline the objectives of UniCarbKB, and describe a selection of step-by-step workflows for navigating the information available. We also provide a short description of web services available and future plans for improving data access. The information presented in this Chapter supplements content available in our knowledgebase including regular updates on interface improvements, new features, and revisions to the database content (http://confluence.unicarbkb.org).

Original languageEnglish
Title of host publicationProtein bioinformatics
Subtitle of host publicationfrom protein modifications and networks to proteomics
EditorsCathy H. Wu, Cecilia N. Arighi, Karen E. Ross
Place of PublicationNew York
PublisherHumana Press
Chapter7
Pages139-158
Number of pages20
ISBN (Electronic)9781493967834
ISBN (Print)9781493967810
DOIs
Publication statusPublished - 2017

Publication series

NameMethods in molecular biology
PublisherHumana Press
Volume1558
ISSN (Print)1064-3745
ISSN (Electronic)1940-6029

Keywords

  • Curation
  • Database
  • Glycan
  • Glycobioinformatics
  • Glycomics
  • Glycoproteomics

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