Guidelines

Overview

 

Guideline

Version

Published

Sample Preparation

1.0; 18 Feb. 2016

Glycobiology, 2016, 26(9):907-910

Mass Spectrometric Analysis

1.0; 24 Apr. 2013

Mol. Cell. Proteomics, 2013, 12:991-995

Glycan Microarray Analysis

1.0; 22 June 2016

 

 

 

 

 

 

 

Sample preparations

 

Sample preparations guidelines

The guidelines in version 1.0 as approved by 18 February, 2016, are available in PDF format. doi:10.3762/mirage.1

Published in: Glycobiology, 2016, 26(9):907-910. doi:10.1093/glycob/cww082

Authors of this document

Weston B. Struwe, Erdmann Rapp, Daniel Kolarich, Matthew P. Campbell, Stuart M. Haslam, Joseph Zaia, Ryan McBride, Yan Liu, Sanjay Agravat, William S. York, Rene Ranzinger and Carsten Kettner

General Comments

The sample preparation guidelines are designed to include all aspects of sample generation, purification and modification from biological and/or synthetic material. Fundamentally, the application of MIRAGE sample preparation guidelines will lead to improved recording of experimental protocols and reporting of understandable and reproducible glycomics datasets.
In addition, these guidelines are considered as a common basis for any further MIRAGE reporting guidelines in order to keep the requirements for data analysis short and consistent.

Following aspects are covered

  • Sample Origin: General information, Biologically derived material, Chemically derived material, Description of starting material
  • Sample processing: (1) isolation: enzymatic and/or chemical treatment; (2) modification: Enzymatic and/or chemical modifications; (3) purification: steps
  • Defined sample: sample name

Mass Spectrometric Analysis

MS guidelines

The guidelines in version 1.0 as approved by April 24, 2013, are available in PDF format.
doi:10.3762/mirage.2

Published in: Mol.Cell. Proteomics, 2013, 12:991-995. doi:10.1074/mcp.O112.026492

Authors of this document

Matthew Campbell, Stuart Haslam, Carsten Kettner, Daniel Kolarich, René Ranzinger, Erdmann Rapp, Weston Struwe, Will York, Joe Zaia

Statement

Based on the MIAPE guidelines template, MIAPE-MS version 2.24.

General Comments

We believe that a basic description on the sample preparation workflow is required. In contrast to proteomics, different types of glycoconjugates require partially different release approaches, which in turn can have direct influence on the conditions/parameters mentioned below. Parameters that should be included could be:

  • released glycans or still attached to protein/lipid/…
  • type of glycan (N-glycan, O-glycan,proteoglycan fragment,…)
  • sample pre-treatment prior MS-Analyses (non, reduced, permethylated, endo/exoglycosidase digested, fluorescent label, online/offline LC-separation, …

Glycan Microarray Analysis

Glycan microarray guidelines

The guidelines in the version 1.0 as approved by
22 June 2016 are available in PDF format. doi:10.3762/mirage.3

Authors of this document

Yan Liu, Ten Feizi, David Smith, James Paulson, Ryan McBride, Carsten Kettner, Daniel Kolarich, René Ranzinger, Will York

General Comments

These guidelines were drafted to be intentionally minimal and apply only to information required for generating interpretable data from a glycan array experiment. We have identified 8 areas, numbered in the workflow shown below, that are required for generating an unambiguous glycan array in the first instance and obtaining binding data.  For each numbered component of the workflow area we provide guidelines for the minimal information that should be provided in reporting results.

  • Sample: Glycan binding sample and assay conditions
  • Glycan library
  • Printing surface
  • Array Printer
  • Glycan microarray with "map"
  • Detector and data processing
  • Glycan microarray data presentation
  • Interpretation and conclusion from microarray data