Document Detail


An alpha-numeric code for representing N-linked glycan structures in secreted glycoproteins.
MedLine Citation:
PMID:  18458952     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Advances in high-throughput techniques have led to the creation of increasing amounts of glycome data. The storage and analysis of this data would benefit greatly from a compact notation for describing glycan structures that can be easily stored and interpreted by computers. Towards this end, we propose a fixed-length alpha-numeric code for representing N-linked glycan structures commonly found in secreted glycoproteins from mammalian cell cultures. This code, GlycoDigit, employs a pre-assigned alpha-numeric index to represent the monosaccharides attached in different branches to the core glycan structure. The present branch-centric representation allows us to visualize the structure while the numerical nature of the code makes it machine readable. In addition, a difference operator can be defined to quantitatively differentiate between glycan structures for further analysis. The usefulness and applicability of GlycoDigit were demonstrated by constructing and visualizing an N-linked glycosylation network.
Authors:
Faraaz Noor Khan Yusufi; Wonjun Park; May May Lee; Dong-Yup Lee
Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2008-05-06
Journal Detail:
Title:  Bioprocess and biosystems engineering     Volume:  32     ISSN:  1615-7605     ISO Abbreviation:  Bioprocess Biosyst Eng     Publication Date:  2009 Jan 
Date Detail:
Created Date:  2008-12-19     Completed Date:  2009-04-14     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  101088505     Medline TA:  Bioprocess Biosyst Eng     Country:  Germany    
Other Details:
Languages:  eng     Pagination:  97-107     Citation Subset:  IM    
Affiliation:
Bioprocessing Technology Institute, Biomedical Sciences Institutes, Agency for Science, Technology and Research (A*STAR), Singapore.
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MeSH Terms
Descriptor/Qualifier:
Acetylglucosamine / chemistry
Algorithms
Animals
Biotechnology / methods*
CHO Cells
Computational Biology / methods*
Cricetinae
Cricetulus
Galactose / chemistry
Glycoproteins / chemistry*,  metabolism
Glycosylation
Mannose / chemistry
N-Acetylneuraminic Acid / chemistry
Polysaccharides / chemistry*
Software
Chemical
Reg. No./Substance:
0/Glycoproteins; 0/Polysaccharides; 131-48-6/N-Acetylneuraminic Acid; 26566-61-0/Galactose; 31103-86-3/Mannose; 7512-17-6/Acetylglucosamine

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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