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MIRAGE/Glycosylation Working Group

Overview

This working group aims to provide an interface between the efforts of the MIRAGE Commission, which has mostly focused on glycomic analysis, and the more protein-centric PSI community, to provide guidelines and formats for the reporting of glycoproteomic data and results.

MIRAGE

MIRAGE stands for “Minimum Information Required for A Glycomics Experiment”. Since 2011, the MIRAGE Commission has been supported and coordinated by the Beilstein-Institut, a non-profit foundation based in Frankfurt am Main, Germany.

The aims of MIRAGE are

  • the improvement of the quality of journal articles describing glycomics analyses by providing authors with reporting guidelines,
  • development of frameworks for structuring carbohydrate data and metadata,
  • contribution to the establishment of a world-wide linked electronic infrastructure for the storage and analysis of carbohydrate structure data.


Glycans exist in unbound and bound forms (glycoconjugates).  Guidelines for standardizing glycoproteomic data should most logically be developed through the combined efforts of MIRAGE and relevant PSI working groups.

MIRAGE data standards/reporting guidelines

The MIRAGE guidelines are accessible here and cover:

  • Sample Preparations
  • Mass Spectrometric analysis (MS-based analytics for glycomics and glycoproteins)
  • MS Glycoproteomics Analysis (extended and updated version of the Mass Spec. Analysis) 
  • Liquid Chromatography
  • Capillary Electrophoresis
  • NMR Glycan structures


Interactomics is addressed by

  • Glycan Microarray Analysis
  • Lectin/protein Microarray Analysis


Analogous reporting standards and guidelines have been developed for proteomic data by PSI groups such as  MIAPE (Minimum Information About a Proteomics Experiment) and for interaction data (MIMIx: The minimum information about a Molecular Interaction experiment, and IMEx:International Molecular Interaction Exchange consortium data standards).

Goals of the PSI-Glyco group

Goal 1: Extension of existing proteomic formats to support glycomic and glycoproteomic data, e.g mzIdentML, or development of new data exchange formats based on the reporting guidelines, as needed.

Goal 2: Encouraging journals and funding agencies to enforce these guidelines in publications to make glycoproteomic data more FAIR.

Goal 3: Tight collaboration with groups developing repositories and databases that are compliant with either MIRAGE- or PSI.

Goal 4: Collaboration with groups developing software tools for data analysis.

Working group

Chaired by
Carsten Kettner, Beilstein-Institut, Frankfurt am Main, Germany; ckettner@beilstein-institut.de,
Frédérique Lisacek – Swiss Institute for Bioinformatics, Geneva, Switzerland;
Kiyoko Aoki-Kinoshita – Soka University, Tokyo, Japan;

  • Morten Thaysen-Andersen, Macquarie University, Sydney, Australia;
  • William Hackett, Boston University, Boston, MA, USA;
  • Robert Chalkley, University of California, San Francisco, CA, USA;
  • René Ranzinger, University of Georgia, CCRC, Athens, GA, USA;
  • Kay-Hooi Khoo, Academia Sinica, Taipei, Taiwan;
  • Stacy Malaker, Yale University, New Haven, CT, USA;
  • Katherine Wongtrakul-Kish, Macquarie University, Sydney, Australia;
  • Sriram Neelamegham, State University of New York at Buffalo, USA
  • Sylvie Ricard-Blum, University Lyon 1, Villeurbanne, France