Handbook of Glycomics

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Your rating has been recorded. Write a review Rate this item: 1 2 3 4 5. Preview this item Preview this item. Beginning with analytic approaches and bioinformatics, this work provides a detailed discussion of relevant databases, data inegration, and analysis. It then moves on to a discussion of specifc model organism and pathogen glycomes followed by therapeutic approaches to human disorders of glycosylation. Structure and function of glycomes are included along with state-of-the-art technologies and systems approaches to analysis of glycans.

Read more Show all links. Allow this favorite library to be seen by others Keep this favorite library private. Find a copy in the library Finding libraries that hold this item Offers a comprehensive overview of the field of glycomics, defined as the study of complex carbohydrates in an organism or cell 'the glycome'.

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This work discusses specific model organism and pathogen glycomes followed by therapeutic approaches to human disorders of glycosylation. It includes discussions of proteomics, mass spectrometry, and NMR. Reviews Editorial reviews. Publisher Synopsis "Overall, this book is well presented; each chapter contains very valuable figures, an up-to-date bibliography, and tables and charts including 22 color plates at the end of the book.

User-contributed reviews Add a review and share your thoughts with other readers. Be the first. Add a review and share your thoughts with other readers. Similar Items Related Subjects: 3 Glycomics. Glykobiologie Glykoproteine. Linked Data More info about Linked Data. Glycoconjugate Structural Analysis -- Sect. Glycotranscriptomics -- Sect.

Protein-Glycan Interactions -- Sect. Owen Fields. With Attila A. With Neil Benson.

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With Rob H. Stierum, E. Dinant Kroese, Jack W. Vogels, Harrie Buist, Danyel G.

Handbook of Glycomics

Jennen, Eugene P. Thougaard, Jorrit J. Hornberg, Tanja Rouhani Rankouhi. With Shobha Purushothama, Boris Gorovits. With Martijn J. Wilmer, Frans G. With Amy Pointon, Nick Edmunds. Seyhan, Claudio Carini. With Suso Platero. Fijneman, Arnoud van der Maas, Jeroen A. With Lars Kuepfer, Andreas Schuppert. With Florence Bietrix, Antoni L. Andreu, Giovanni Migliaccio, Anton E. With Weidong Zhang. Beckman, Sandeep Menon, Weidong Zhang. With Robert Holt.

1 Introduction

With Robert A. Beckman, Cong Chen. With Mark D.

Fidock, Glen Hughes, Alain J. With Jonathan I. With Benoit Destenaves. With Martina Kaufmann. With Andreas Scherer. With John L. With Boris Gorovits. By defining the glycan alphabet in terms of the basetype essentially the variation of the core, see formal definition in the reference Herget et al. While the human glycan alphabet is small in number 9 , the complexity in glycan structure comes from the multiple linkages possible between monomers, the stereochemical possibilities for each linkage as well as the conformational flexibility of the monomers themselves.

This complexity is evident by comparing the 9 combinatorial possibilities when linking three different amino acids to as many as 27 possibilities from three different monosaccharides Laine, A final level of complexity is the synthesis of glycans. Unlike DNA and protein synthesis, glycan synthesis is non-templated. Protein enzymes are responsible for glycan synthesis. Glycosyl transferases extend glycans by adding monomers to existing glycans, while Glycosyl Hydrolases lyse glycosidic linkages and divide glycans into smaller sections. The activity of these enzymes is influenced by factors including cellular metabolism, life stage and nutrient availability Walt et al.

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There are a number of well-developed, interoperable, robust tools and databases for gene and protein analysis Brooksbank et al. This is due in part to the templated synthesis of these polymers that make relatively robust methods for synthesis notably PCR and sequencing possible. The combined effect of the biochemical synthesis and conformationally complex, multi-branched nature of glycans makes the purification, extraction and computational analysis of the structural data far more challenging than in genomics and proteomics Campbell et al.

Some tools developed for the genomic and proteomic paradigm have been applied to glycomics and used in the design and insertion of N-glycosylation sites on proteins Mazola et al. Although limited efforts have been made to bridge glycomics with other fields, glycobioinformatics remains hamstrung by the complexity and diversity of oligosaccharide structures Campbell et al.

Superimposed on this is lack of sustained support from funding agencies for the development of glycomics methods and data repositories.

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The development of glycomics methods therefore relies upon independent and sporadically funded efforts. The resulting databases and toolsets therefore lack interlinks between similar and related tools. More serious is the lack of an emergent set of developmental standards amongst databases. A comprehensive overview of glycan sequence formats and databases has recently been reviewed, Campbell et al. For example, GlycomeDB Ranzinger et al.


Handbook of Glycomics

Many web portals do not provide machine-readable web services; subsequently the Working Group on Glycomics Database Standards WGGDS initiated i the development of standards for inputs and outputs of glycomics web services and ii the development of guidelines to report glycomics data Campbell et al. The Resource Description Format RDF is a model for exchanging data on the web that uses subject-predicate-object expressions triples to express formal naming and to describe relationships between pieces of information.

Conducting an in silico systems biology experiment requires access to data repositories, computational tools and a knowledge base to connect these resources Oinn et al. Access to remote web services and ensuring reproducibility of computational experiments requires a working knowledge of computer scripting and programming. Workflows Goecks et al. Computational analyses encompass tasks that retrieve data, transform or analyze it followed by a visualization of the results Goble et al. Workflows implemented in Taverna Oinn et al.

Galaxy Goecks et al. The workflows created on platforms such as this can be published using social research platforms such as myExperiment Goble et al.