Abstract
This chapter describes the KEGG GLYCAN database of the KEGG resource, including descriptions of links to the other databases in KEGG. In particular, KEGG GLYCAN consists of glycan structures, with links to glycogenes, orthologs, reactions, pathways, drugs, diseases, and others, all within the KEGG resources. A number of analytical tools are also available, including the composite structure map (CSM), KegDraw, KCam, and GECS. These databases and tools will be described along with simple examples of their usage.
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References
Hashimoto K, Goto S, Kawano S, Aoki-Kinoshita K, Ueda N, Hamajima M, Kawasaki T, Kanehisa M (2006) KEGG as a glycome informatics resource. Glycobiology 16:63R–70R
Kanehisa M, Goto S, Sato Y, Furumichi M, Tanabe M (2012) KEGG for integration and interpretation of large-scale molecular data sets. Nucleic Acids Res 40:D109–D114
Hashimoto K, Tokimatsu T, Kawano S, Yoshizawa AC, Okuda S, Goto S, Kanehisa M (2009) Comprehensive analysis of glycosyltransferases in eukaryotic genomes for structural and functional characterization of glycans. Carbohydr Res 344:881–887
Barrett AJ (1997) Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (NC-IUBMB). Enzyme Nomenclature. Recommendations 1992. Supplement 4: corrections and additions. Eur J Biochem 250:1–6
Cantarel BL, Coutinho PM, Rancurel C, Bernard T, Lombard V, Henrissat B (2009) The Carbohydrate-Active EnZymes database (CAZy): an expert resource for glycogenomics. Nucleic Acids Res 37:D233–D238
Ranzinger R, Herget S, von der Lieth CW, Frank M (2011) GlycomeDB—a unified database for carbohydrate structures. Nucleic Acids Res 39:D373–D376
JCGGDB. http://jcggdb.jp
Aoki K, Yamaguchi A, Ueda N, Akutsu T, Mamitsuka H, Goto S, Kanehisa M (2004) KCaM (KEGG Carbohydrate Matcher): a software tool for analyzing the structures of carbohydrate sugar chains. Nucleic Acids Res 32:W267–W272
Hashimoto K, Kawano S, Goto S, Aoki-Kinoshita K, Kawashima M, Kanehisa M (2005) A global representation of the carbohydrate structures: a tool for the analysis of glycan. Genome Inform 16:214–222
Kawano S, Hashimoto K, Miyama T, Goto S, Kanehisa M (2005) Prediction of glycan structures from gene expression data based on glycosyltransferase reactions. Bioinformatics 21:3976–3982
Suga A, Yamanishi Y, Hashimoto K, Goto S, Kanehisa M (2007) An improved scoring scheme for predicting glycan structures from gene expression data. Genome Inform 18:237–246
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Aoki-Kinoshita, K.F., Kanehisa, M. (2015). Glycomic Analysis Using KEGG GLYCAN. In: Lütteke, T., Frank, M. (eds) Glycoinformatics. Methods in Molecular Biology, vol 1273. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2343-4_7
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DOI: https://doi.org/10.1007/978-1-4939-2343-4_7
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