Literature DB >> 30574787

GlyConnect: Glycoproteomics Goes Visual, Interactive, and Analytical.

Davide Alocci1,2, Julien Mariethoz1,2, Alessandra Gastaldello1,2, Elisabeth Gasteiger3, Niclas G Karlsson4, Daniel Kolarich5,6, Nicolle H Packer5,6,7, Frédérique Lisacek1,2,8.   

Abstract

Knowledge of glycoproteins, their site-specific glycosylation patterns, and the glycan structures that they present to their recognition partners in health and disease is gradually being built on using a range of experimental approaches. The data from these analyses are increasingly being standardized and presented in various sources, from supplemental tables in publications to localized servers in investigator laboratories. Bioinformatics tools are now needed to collect these data and enable the user to search, display, and connect glycomics and glycoproteomics to other sources of related proteomics, genomics, and interactomics information. We here introduce GlyConnect ( https://glyconnect.expasy.org/ ), the central platform of the Glycomics@ExPASy portal for glycoinformatics. GlyConnect has been developed to gather, monitor, integrate, and visualize data in a user-friendly way to facilitate the interpretation of collected glycoscience data. GlyConnect is designed to accommodate and integrate multiple data types as they are increasingly produced.

Entities:  

Keywords:  data curation; data integration; data visualization; database; glycan structure; glycomics; glycoprotein; glycoproteomics; mass spectrometry; software

Mesh:

Substances:

Year:  2019        PMID: 30574787     DOI: 10.1021/acs.jproteome.8b00766

Source DB:  PubMed          Journal:  J Proteome Res        ISSN: 1535-3893            Impact factor:   4.466


  32 in total

1.  Standardization of PGC-LC-MS-based glycomics for sample specific glycotyping.

Authors:  Christopher Ashwood; Brian Pratt; Brendan X MacLean; Rebekah L Gundry; Nicolle H Packer
Journal:  Analyst       Date:  2019-05-08       Impact factor: 4.616

Review 2.  Applications and continued evolution of glycan imaging mass spectrometry.

Authors:  Colin T McDowell; Xiaowei Lu; Anand S Mehta; Peggi M Angel; Richard R Drake
Journal:  Mass Spectrom Rev       Date:  2021-08-15       Impact factor: 10.946

3.  An Interactive View of Glycosylation.

Authors:  Julien Mariethoz; Davide Alocci; Niclas G Karlsson; Nicolle H Packer; Frédérique Lisacek
Journal:  Methods Mol Biol       Date:  2022

4.  Bioinformatics in Immunoglobulin Glycosylation Analysis.

Authors:  Frédérique Lisacek; Kathirvel Alagesan; Catherine Hayes; Steffen Lippold; Noortje de Haan
Journal:  Exp Suppl       Date:  2021

Review 5.  A Perspective on the Confident Comparison of Glycoprotein Site-Specific Glycosylation in Sample Cohorts.

Authors:  Joshua A Klein; Joseph Zaia
Journal:  Biochemistry       Date:  2019-12-31       Impact factor: 3.162

Review 6.  Big-Data Glycomics: Tools to Connect Glycan Biosynthesis to Extracellular Communication.

Authors:  Benjamin P Kellman; Nathan E Lewis
Journal:  Trends Biochem Sci       Date:  2020-12-18       Impact factor: 13.807

Review 7.  Importance of evaluating protein glycosylation in pluripotent stem cell-derived cardiomyocytes for research and clinical applications.

Authors:  Maia I Kelly; Mustafa Albahrani; Chase Castro; Ellen Poon; Bin Yan; Jack Littrell; Matthew Waas; Kenneth R Boheler; Rebekah L Gundry
Journal:  Pflugers Arch       Date:  2021-04-08       Impact factor: 3.657

8.  Expasy, the Swiss Bioinformatics Resource Portal, as designed by its users.

Authors:  Séverine Duvaud; Chiara Gabella; Frédérique Lisacek; Heinz Stockinger; Vassilios Ioannidis; Christine Durinx
Journal:  Nucleic Acids Res       Date:  2021-07-02       Impact factor: 16.971

9.  Glycan Compositions with GlyConnect Compozitor to Enhance Glycopeptide Identification.

Authors:  Julien Mariethoz; Catherine Hayes; Frédérique Lisacek
Journal:  Methods Mol Biol       Date:  2021

10.  Enhancing the interoperability of glycan data flow between ChEBI, PubChem and GlyGen.

Authors:  Rahi Navelkar; Gareth Owen; Venkatesh Mutherkrishnan; Paul Thiessen; Tiejun Cheng; Evan Bolton; Nathan Edwards; Michael Tiemeyer; Matthew P Campbell; Maria Martin; Jeet Vora; Robel Kahsay; Raja Mazumder
Journal:  Glycobiology       Date:  2021-12-18       Impact factor: 5.954

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