The minimum information required for a glycomics experiment (MIRAGE) project: sample preparation guidelines for reliable reporting of glycomics datasets

Weston B Struwe; Sanjay Agravat; Kiyoko F Aoki-Kinoshita; Matthew P Campbell; Catherine E Costello; Anne Dell; Ten Feizi; Stuart M Haslam; Niclas G Karlsson; Kay-Hooi Khoo; Daniel Kolarich; Yan Liu; Ryan McBride; Milos V Novotny; Nicolle H Packer; James C Paulson; Erdmann Rapp; Rene Ranzinger; Pauline M Rudd; David F Smith; Michael Tiemeyer; Lance Wells; William S York; Joseph Zaia; Carsten Kettner

doi:10.1093/glycob/cww082

The minimum information required for a glycomics experiment (MIRAGE) project: sample preparation guidelines for reliable reporting of glycomics datasets

Glycobiology. 2016 Sep;26(9):907-910. doi: 10.1093/glycob/cww082. Epub 2016 Sep 21.

Authors

Weston B Struwe¹, Sanjay Agravat², Kiyoko F Aoki-Kinoshita³, Matthew P Campbell⁴, Catherine E Costello⁵, Anne Dell⁶, Ten Feizi⁷, Stuart M Haslam⁶, Niclas G Karlsson⁸, Kay-Hooi Khoo⁹, Daniel Kolarich¹⁰, Yan Liu⁷, Ryan McBride¹¹, Milos V Novotny¹², Nicolle H Packer⁴, James C Paulson¹¹, Erdmann Rapp¹³, Rene Ranzinger¹⁴, Pauline M Rudd¹⁵, David F Smith¹⁶, Michael Tiemeyer¹⁴, Lance Wells¹⁴, William S York¹⁴, Joseph Zaia⁵, Carsten Kettner¹⁷

Affiliations

¹ Department of Biochemistry, Glycobiology Institute , University of Oxford, Oxford OX1 3QU, UK [email protected] [email protected].
² Department of Surgery, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA, USA.
³ Department of Bioinformatics, Faculty of Engineering, Soka University, 1-236 Tangi-machi, Hachioji, Tokyo 192-8577, Japan.
⁴ Biomolecular Frontiers Research Centre, Macquarie University, Sydney, NSW 2109, Australia.
⁵ Department of Biochemistry, Center for Biomedical Mass Spectrometry, Boston University, School of Medicine, 670 Albany Street, Suite 504, Boston, MA 02118, USA.
⁶ Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, UK.
⁷ Department of Medicine, Glycosciences Laboratory, Imperial College London, Du Cane Road, London W12 0NN, UK.
⁸ Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, PO Box 440, 405 30 Gothenburg, Sweden.
⁹ Institute of Biological Chemistry, Academia Sinica, 128, Academia Road Sec. 2, Nankang, Taipei 115, Taiwan.
¹⁰ Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, 14424 Potsdam, Germany.
¹¹ Department of Cell and Molecular Biology, The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, CA 92037, USA.
¹² Department of Chemistry, Indiana University, 800 E. Kirkwood Avenue, Bloomington, IN 47405, USA.
¹³ Max Planck Institute for Dynamics of Complex Technical Systems, 39106 Magdeburg, Germany.
¹⁴ Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA 30602, USA.
¹⁵ NIBRT GlycoScience Group, NIBRT-National Institute for Bioprocessing Research and Training, Fosters Avenue, Mount Merrion, Blackrock, Co. Dublin, Ireland.
¹⁶ Center for Comprehensive Informatics, Research and Woodruff Health Sciences IT, Emory University, 1784 N. Decatur Rd, Atlanta, GA 30322, USA.
¹⁷ Beilstein-Institut, Trakehner Str. 7-9, 60487 Frankfurt am Main, Germany [email protected] [email protected].

Abstract

The minimum information required for a glycomics experiment (MIRAGE) project was established in 2011 to provide guidelines to aid in data reporting from all types of experiments in glycomics research including mass spectrometry (MS), liquid chromatography, glycan arrays, data handling and sample preparation. MIRAGE is a concerted effort of the wider glycomics community that considers the adaptation of reporting guidelines as an important step towards critical evaluation and dissemination of datasets as well as broadening of experimental techniques worldwide. The MIRAGE Commission published reporting guidelines for MS data and here we outline guidelines for sample preparation. The sample preparation guidelines include all aspects of sample generation, purification and modification from biological and/or synthetic carbohydrate material. The application of MIRAGE sample preparation guidelines will lead to improved recording of experimental protocols and reporting of understandable and reproducible glycomics datasets.

Keywords: MIRAGE; glycobiology; glycomics; sample preparation.

Publication types

Research Support, Non-U.S. Gov't
Research Support, N.I.H., Extramural

MeSH terms

Chromatography, Liquid
Datasets as Topic
Glycomics / methods*
Guidelines as Topic
Mass Spectrometry
Polysaccharides / chemistry
Polysaccharides / isolation & purification*
Specimen Handling / methods*

Substances

Polysaccharides

Abstract

Publication types

MeSH terms

Substances

Grants and funding