Literature DB >> 23974240

Counting glycans revisited.

Sebastian Böcker1, Stephan Wagner.   

Abstract

We present an algorithm for counting glycan topologies of order n that improves on previously described algorithms by a factor n in both time and space. More generally, we provide such an algorithm for counting rooted or unrooted d-ary trees with labels or masses assigned to the vertices, and we give a "recipe" to estimate the asymptotic growth of the resulting sequences. We provide constants for the asymptotic growth of d-ary trees and labeled quaternary trees (glycan topologies). Finally, we show how a classical result from enumeration theory can be used to count glycan structures where edges are labeled by bond types. Our method also improves time bounds for counting alkanes.

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Year:  2013        PMID: 23974240     DOI: 10.1007/s00285-013-0721-3

Source DB:  PubMed          Journal:  J Math Biol        ISSN: 0303-6812            Impact factor:   2.259


  7 in total

1.  STAT: a saccharide topology analysis tool used in combination with tandem mass spectrometry.

Authors:  S P Gaucher; J Morrow; J A Leary
Journal:  Anal Chem       Date:  2000-06-01       Impact factor: 6.986

2.  Glycoproteomic profile in wine: a 'sweet' molecular renaissance.

Authors:  Giuseppe Palmisano; Donato Antonacci; Martin R Larsen
Journal:  J Proteome Res       Date:  2010-10-21       Impact factor: 4.466

3.  Automatic determination of O-glycan structure from fragmentation spectra.

Authors:  David Goldberg; Marshall Bern; Bensheng Li; Carlito B Lebrilla
Journal:  J Proteome Res       Date:  2006-06       Impact factor: 4.466

Review 4.  Glycomics: an integrated systems approach to structure-function relationships of glycans.

Authors:  Rahul Raman; S Raguram; Ganesh Venkataraman; James C Paulson; Ram Sasisekharan
Journal:  Nat Methods       Date:  2005-11       Impact factor: 28.547

5.  Capillary electrophoresis mass spectrometry for the characterization of O-acetylated N-glycans from fish serum.

Authors:  Roxana G Jayo; Jianjun Li; David D Y Chen
Journal:  Anal Chem       Date:  2012-09-26       Impact factor: 6.986

6.  Determination of glycan structure from tandem mass spectra.

Authors:  Sebastian Böcker; Birte Kehr; Florian Rasche
Journal:  IEEE/ACM Trans Comput Biol Bioinform       Date:  2011 Jul-Aug       Impact factor: 3.710

7.  Application of the StrOligo algorithm for the automated structure assignment of complex N-linked glycans from glycoproteins using tandem mass spectrometry.

Authors:  Martin Ethier; Julian A Saba; Maureen Spearman; Oleg Krokhin; Michael Butler; Werner Ens; Kenneth G Standing; Hélène Perreault
Journal:  Rapid Commun Mass Spectrom       Date:  2003       Impact factor: 2.419

  7 in total

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