Glycoinformatics

著者

書誌事項

Glycoinformatics

Thomas Lütteke, Martin Frank, editors

（Methods in molecular biology / John M. Walker, series editor, 1273）（Springer protocols）

Humana Press, c2015

  • : pbk

大学図書館所蔵 件 / 全1件

この図書・雑誌をさがす

注記

"Softcover reprint of the hardcover 1st edition 2015."--T.p. verso

Includes bibliographical references and index

内容説明・目次

内容説明

This book provides current glycoinformatics methods and protocols used to support the determination of carbohydrate structures in biological samples as well as carbohydrate structure databases, the interaction of carbohydrates with proteins, and theoretical and experimental methods to study their three-dimensional structure and dynamics. Glycoinformatics explores this recently emerged field, which has come into being in order to address the needs of encoding, storing, and analyzing carbohydrate 'sequences' and their taxonomy using computers. Written in the highly successful Methods in Molecular Biology series format, chapters contain the kind of detailed description and key implementation advice to ensure successful results. Authoritative and timely, Glycoinformatics demonstrates the progress that has been achieved in glycoinformatics, which indicates that it is no longer a niche subject covered by only a few scientists but is truly coming of age.

目次

Part I: Software Tools for Experimental Glycan Analysis and Profiling 1. Annotation of Glycomics MS and MS/MS Spectra Using the GlycoWorkbench Software Tool David Damerell, Alessio Ceroni, Kai Maass, Rene Ranzinger, Anne Dell, and Stuart M. Haslam 2. GlycoBase and autoGU: Resources for Interpreting HPLC-Glycan Data Matthew P. Campbell, Lousie Royle, and Pauline M. Rudd 3. NMR Chemical Shift Prediction of Glycans: Application of the Computer Program CASPER in Structural Analysis Magnus Lundborg and Goeran Widmalm Part II: Glycosylation: Storing and Managing Carbohydrate Structure Data 4. Handling and Conversion of Carbohydrate Sequence Formats and Monosaccharide Notation Thomas Lutteke 5. Bacterial, Plant, and Fungal Carbohydrate Structure Databases: Daily Usage Philip V. Toukach and Ksenia S. Egorova 6. Using NMR Data on GLYCOSCIENCES.de Alexander Loss and Thomas Lutteke 7. Glycomic Analysis Using KEGG GLYCAN Kiyoko F. Aoki-Kinoshita and Minoru Kanehisa 8. GlycomeDB Rene Ranzinger and William S. York Part III: "Understanding" Glycosylation 9. Eukaryotic Glycosylation: Online Methods for Site-Prediction on Protein Sequences Hiren J. Joshi and Ramneek Gupta 10. Analyzing Glycan Structure Synthesis with the Glycan Pathway Predictor (GPP) Tool Kiyoko F. Aoki-Kinoshita 11. Functional Network in Post-Translational Modifications: Glyco-Net in Glycoconjugate Data Bank Nobuaki Miura, Takuya Okada, Daisuke Murayama, Kazuko Hirose, Taku Sato, Ryo Hashimoto, and Nobuhiro Fukushima Part IV: Protein-Carbohydrate Interaction: Databases 12. JCGGDB: Japan Consortium for Glycobiology and Glycotechnology DataBase Masako Maeda, Noriaki Fujita, Yoshinori Suzuki, Hiromichi Sawaki, Toshihide Shikanai, and Hisashi Narimatsu 13. Glycan Array Data Management at Consortium for Functional Glycomics Maha Venkataraman, Ram Sasisekharan, and Rahul Raman Part V: Protein-Carbohydrate Interaction: Data Mining 14. Analyzing Glycan Binding Patterns with the ProfilePSTMM Tool Kiyoko F. Aoki-Kinoshita 15. Exploring the Specificities of Glycan-Binding Proteins Using Glycan Array Data and the GlycoSearch Software Doron Kletter, Bryan Curnutte, Kevin Maupin, Marshall Bern, and Brian B. Haab 16. Statistical Analysis of Amino Acids in the Vicinity of Carbohydrate Residues Performed by GlyVicinity Miguel A. Rojas-Macias and Thomas Lutteke Part VI: Structural Glycoinformatics: Databases and Tools 17. Tools to Assist Determination and Validation of Carbohydrate 3D Structure Data Paul Emsley, Axel T. Brunger, and Thomas Lutteke 18. Glyco3D : A Portal for Structural Glycosciences Serge Perez, Anita Sarkar, Alain Rivet, Christelle Breton, and Anne Imberty Part VII: Structural Glycoinformatics: Structure Determination and Simulation 19. Solution Conformation of Carbohydrates: A View by Using NMR Assisted by Modeling Dolores Diaz, Angeles Canales-Mayordomo, F. Javier Canada, and Jesus Jimenez-Barbero 20. Informing Saccharide Structural NMR Studies with Density Functional Theory Calculations Thomas Klepach, Hongqiu Zhao, Xiaosong Hu, Wenhui Zhang, Roland Stenutz, Matthew J. Hadad, Ian Carmichael, and Anthony S. Serianni 21. Energy Maps for Glycosidic Linkage Conformations Alfred D. French 22. Conformational Analysis of Oligo- and Polysaccharides Using Molecular Dynamics Simulations Martin Frank 23. Molecular Dynamics Simulations of Membrane- and Protein-Bound Glycolipids Using GLYCAM Mari L. DeMarco 24. Lipopolysaccharide Membrane Building and Simulation Sunhwan Jo, Emilia L. Wu, Danielle Stuhlsatz, Jeffery B. Klauda, Alexander D. MacKerell, Jr., Goeran Widmalm, and Wonpil Im 25. Molecular Dynamics Simulations of Glycoproteins Using CHARMM Sairam S. Mallajosyula, Sunhwan Jo, Wonpil Im, and Alexander D. MacKerell, Jr. 26. Calculating Binding Free Energies for Protein-Carbohydrate Complexes Jodi A. Hadden, Matthew B. Tessier, Elisa Fadda, and Robert J. Woods 27. Scoring Functions for AutoDock Anthony D. Hill and Peter J. Reilly 28. Structures of Glycans Bound to Receptors from Saturation Transfer Difference (STD) NMR Spectroscopy: Quantitative Analysis by Using CORCEMA-ST Pedro M. Enriquez-Navas, Cinzia Guzzi, Juan C. Munoz-Garcia, Pedro M. Nieto, and Jesus Angulo 29. QM/MM Methods for Studying Enzymatic Reactions of Glycosyltransferases Igor Tvaroska

「Nielsen BookData」 より

関連文献： 2件中  1-2を表示

詳細情報

ページトップへ