Literature DB >> 25753699

Annotation of glycomics MS and MS/MS spectra using the GlycoWorkbench software tool.

David Damerell1, Alessio Ceroni, Kai Maass, René Ranzinger, Anne Dell, Stuart M Haslam.   

Abstract

The GlycoWorkbench software tool allows users to semiautomatically annotate glycomics MS and MS/MS spectra and MS glycoproteomics spectra. The GlycanBuilder software tool is embedded within GlycoWorkbench allowing users to draw glycan structures and export images of the drawn structures. This chapter demonstrates to users how to draw glycan structures within GlycoWorkbench using the GlycanBuilder software tool. This chapter also demonstrates how to use GlycoWorkbench to import MS and MS/MS glycomics spectra and use the cascading annotation feature to annotate both the MS and MS/MS spectra with a single command.

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Year:  2015        PMID: 25753699     DOI: 10.1007/978-1-4939-2343-4_1

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  24 in total

1.  Quantitative Glycomics: A Combined Analytical and Bioinformatics Approach.

Authors:  L Veillon; S Zhou; Y Mechref
Journal:  Methods Enzymol       Date:  2017-01-09       Impact factor: 1.600

2.  Glycan analysis of human neutrophil granules implicates a maturation-dependent glycosylation machinery.

Authors:  Vignesh Venkatakrishnan; Régis Dieckmann; Ian Loke; Harry C Tjondro; Sayantani Chatterjee; Johan Bylund; Morten Thaysen-Andersen; Niclas G Karlsson; Anna Karlsson-Bengtsson
Journal:  J Biol Chem       Date:  2020-07-14       Impact factor: 5.157

3.  Specific N-Linked Glycosylation Patterns in Areas of Necrosis in Tumor Tissues.

Authors:  Danielle A Scott; Kim Norris-Caneda; Laura Spruill; Evelyn Bruner; Yuko Kono; Peggi M Angel; Anand S Mehta; Richard R Drake
Journal:  Int J Mass Spectrom       Date:  2018-01-09       Impact factor: 1.986

4.  Structural elucidation of fucosylated chondroitin sulfates from sea cucumber using FTICR-MS/MS.

Authors:  Isaac Agyekum; Lauren Pepi; Yanlei Yu; Junhui Li; Lufeng Yan; Robert J Linhardt; Shiguo Chen; I Jonathan Amster
Journal:  Eur J Mass Spectrom (Chichester)       Date:  2017-09-19       Impact factor: 1.067

5.  Sulfated Lewis A trisaccharide on oviduct membrane glycoproteins binds bovine sperm and lengthens sperm lifespan.

Authors:  Sudipta Dutta; Kazuhiro Aoki; Kankanit Doungkamchan; Michael Tiemeyer; Nicolai Bovin; David J Miller
Journal:  J Biol Chem       Date:  2019-07-23       Impact factor: 5.157

6.  DrawGlycan-SNFG: a robust tool to render glycans and glycopeptides with fragmentation information.

Authors:  Kai Cheng; Yusen Zhou; Sriram Neelamegham
Journal:  Glycobiology       Date:  2017-03-15       Impact factor: 4.313

7.  GRITS Toolbox-a freely available software for processing, annotating and archiving glycomics mass spectrometry data.

Authors:  D Brent Weatherly; F Sena Arpinar; Melody Porterfield; Michael Tiemeyer; William S York; Rene Ranzinger
Journal:  Glycobiology       Date:  2019-06-01       Impact factor: 4.313

Review 8.  The Glycoscience of Immunity.

Authors:  Julie Y Zhou; Douglas M Oswald; Kelsey D Oliva; Lori S C Kreisman; Brian A Cobb
Journal:  Trends Immunol       Date:  2018-05-11       Impact factor: 16.687

9.  A Novel Germline Variant in CSF3R Reduces N-Glycosylation and Exerts Potent Oncogenic Effects in Leukemia.

Authors:  David R Spiciarich; Stephen T Oh; Amy Foley; Seamus B Hughes; Michael J Mauro; Omar Abdel-Wahab; Richard D Press; Rosa Viner; Sarah L Thompson; Qiushi Chen; Parastoo Azadi; Carolyn R Bertozzi; Julia E Maxson
Journal:  Cancer Res       Date:  2018-10-22       Impact factor: 12.701

10.  Increases in Tumor N-Glycan Polylactosamines Associated with Advanced HER2-Positive and Triple-Negative Breast Cancer Tissues.

Authors:  Danielle A Scott; Rita Casadonte; Barbara Cardinali; Laura Spruill; Anand S Mehta; Franca Carli; Nicole Simone; Mark Kriegsmann; Lucia Del Mastro; Joerg Kriegsmann; Richard R Drake
Journal:  Proteomics Clin Appl       Date:  2019-01       Impact factor: 3.494

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