Literature DB >> 16242678

GLYDE-an expressive XML standard for the representation of glycan structure.

Satya S Sahoo1, Christopher Thomas, Amit Sheth, Cory Henson, William S York.   

Abstract

The amount of glycomics data being generated is rapidly increasing as a result of improvements in analytical and computational methods. Correlation and analysis of this large, distributed data set requires an extensible and flexible representational standard that is also 'understood' by a wide range of software applications. An XML-based data representation standard that faithfully captures essential structural details of a glycan moiety along with additional information (such as data provenance) to aid the interpretation and usage of glycan data, will facilitate the exchange of glycomics data across the scientific community. To meet this need, we introduce GLYcan Data Exchange (GLYDE) standard as an XML-based representation format to enable interoperability and exchange of glycomics data. An online tool () for the conversion of other representations to GLYDE format has been developed.

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Year:  2005        PMID: 16242678     DOI: 10.1016/j.carres.2005.09.019

Source DB:  PubMed          Journal:  Carbohydr Res        ISSN: 0008-6215            Impact factor:   2.104


  22 in total

Review 1.  Integration of systems glycobiology with bioinformatics toolboxes, glycoinformatics resources, and glycoproteomics data.

Authors:  Gang Liu; Sriram Neelamegham
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2015-04-13

Review 2.  Systems glycobiology: biochemical reaction networks regulating glycan structure and function.

Authors:  Sriram Neelamegham; Gang Liu
Journal:  Glycobiology       Date:  2011-03-24       Impact factor: 4.313

3.  Glycan fingerprints: calculating diversity in glycan libraries.

Authors:  Christoph Rademacher; James C Paulson
Journal:  ACS Chem Biol       Date:  2012-03-09       Impact factor: 5.100

Review 4.  Recent advances in the MS analysis of glycoproteins: Capillary and microfluidic workflows.

Authors:  Diego F Cortes; Jarod L Kabulski; Alexandru C Lazar; Iulia M Lazar
Journal:  Electrophoresis       Date:  2010-11-25       Impact factor: 3.535

Review 5.  Understanding glycomechanics using mathematical modeling: a review of current approaches to simulate cellular glycosylation reaction networks.

Authors:  Apurv Puri; Sriram Neelamegham
Journal:  Ann Biomed Eng       Date:  2011-11-17       Impact factor: 3.934

6.  Informatics Ecosystems to Advance the Biology of Glycans.

Authors:  Lewis J Frey
Journal:  Methods Mol Biol       Date:  2022

7.  Building a PGC-LC-MS N-glycan retention library and elution mapping resource.

Authors:  Jodie L Abrahams; Matthew P Campbell; Nicolle H Packer
Journal:  Glycoconj J       Date:  2017-09-13       Impact factor: 2.916

Review 8.  Bioinformatics and molecular modeling in glycobiology.

Authors:  Martin Frank; Siegfried Schloissnig
Journal:  Cell Mol Life Sci       Date:  2010-04-04       Impact factor: 9.261

9.  Systems-level modeling of cellular glycosylation reaction networks: O-linked glycan formation on natural selectin ligands.

Authors:  Gang Liu; Dhananjay D Marathe; Khushi L Matta; Sriram Neelamegham
Journal:  Bioinformatics       Date:  2008-10-07       Impact factor: 6.937

Review 10.  Analytical glycobiology at high sensitivity: current approaches and directions.

Authors:  Milos V Novotny; William R Alley; Benjamin F Mann
Journal:  Glycoconj J       Date:  2012-09-04       Impact factor: 2.916

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