SOACS index: an easy NMR-based query for glycan retrieval

1H NMR is now a standard method to determine de novo primary sequence of all sorts of glycans. These last 30 years, tens of thousands of oligosaccharide sequences have been elucidated by NMR spectroscopy in conjunction with other physico-chemical methods including mass spectrometry and gas chromatog...

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Bibliographic Details
Published in:Carbohydrate research 2009-02, Vol.344 (3), p.322-330
Main Authors: Maes, Emmanuel, Bonachera, Fanny, Strecker, Gerard, Guerardel, Yann
Format: Article
Language:English
Subjects:
1H NMR
Animals
Biochemistry
Biochemistry, Molecular Biology
Carbohydrate Sequence
Database Management Systems
Databases, Factual
Information Storage and Retrieval
Life Sciences
Magnetic Resonance Spectroscopy
Molecular Sequence Data
N-Glycans
O-Glycans
Polysaccharides - chemistry
Query
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Summary:1H NMR is now a standard method to determine de novo primary sequence of all sorts of glycans. These last 30 years, tens of thousands of oligosaccharide sequences have been elucidated by NMR spectroscopy in conjunction with other physico-chemical methods including mass spectrometry and gas chromatography. Most of these sequences are now compiled and available in several web databases recently unified in publicly available GlycomeDB, along with sets of experimental data. However, because the search for an exact sequence exclusively based on proton chemical shifts is sometimes delicate for NMR non-specialists, we worked out a new type of query, named SOACS, which allows the easy retrieval of existing sequences. This query is based on the readily distinguished 1H chemical shifts from any 1H NMR spectrum, and was designed to be usable to the widest scientist community.
ISSN:0008-6215
1873-426X
0008-6215
DOI:10.1016/j.carres.2008.11.001