Display options
Cite
Liu Y, McBride R, Stoll M, et al. The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting glycan microarray-based data. Glycobiology. 2016;27(4):280-284doi: 10.1093/glycob/cww118.
Liu, Y., McBride, R., Stoll, M., Palma, A. S., Silva, L., Agravat, S., Aoki-Kinoshita, K. F., Campbell, M. P., Costello, C. E., Dell, A., Haslam, S. M., Karlsson, N. G., Khoo, K. H., Kolarich, D., Novotny, M. V., Packer, N. H., Ranzinger, R., Rapp, E., Rudd, P. M., Struwe, W. B., Tiemeyer, M., Wells, L., York, W. S., Zaia, J., Kettner, C., Paulson, J. C., Feizi, T., & Smith, D. F. (2017). The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting glycan microarray-based data. Glycobiology, 27(4), 280-284. https://doi.org/10.1093/glycob/cww118
Liu, Yan, et al. "The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting glycan microarray-based data." Glycobiology vol. 27,4 (2017): 280-284. doi: https://doi.org/10.1093/glycob/cww118
Liu Y, McBride R, Stoll M, Palma AS, Silva L, Agravat S, Aoki-Kinoshita KF, Campbell MP, Costello CE, Dell A, Haslam SM, Karlsson NG, Khoo KH, Kolarich D, Novotny MV, Packer NH, Ranzinger R, Rapp E, Rudd PM, Struwe WB, Tiemeyer M, Wells L, York WS, Zaia J, Kettner C, Paulson JC, Feizi T, Smith DF. The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting glycan microarray-based data. Glycobiology. 2017 Apr;27(4):280-284. doi: 10.1093/glycob/cww118. Epub 2016 Nov 22. PMID: 27993942; PMCID: PMC5444268.
Copy Download .nbib Format: NLM
Share it on

Glycobiology. 2017 Apr;27(4):280-284. doi: 10.1093/glycob/cww118. Epub 2016 Nov 22.

The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting glycan microarray-based data.

Glycobiology

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

Affiliations

  1. Department of Medicine, Glycosciences Laboratory, Imperial College London, Du Cane Road, London W12 0NN, UK.
  2. Department of Cell and Molecular Biology, The Scripps Research Institute, 10550 N Torrey Pines Road, La Jolla, CA 92037, USA.
  3. Department of Chemistry, UCIBIO@REQUIMTE,  Faculty of Science and Technology, NOVA University of Lisbon, Caparica 2829-516, Portugal.
  4. Department of Surgery, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA 02115, USA.
  5. Department of Science and Engineering for Sustainable Innovation, Faculty of Science and Engineering, Soka University, 1-236 Tangimachi, Hachioji, Tokyo 192-8577, Japan.
  6. Biomolecular Frontiers Research Centre, Macquarie University, Sydney, NSW 2109, Australia.
  7. Department of Biochemistry, Center for Biomedical Mass Spectrometry, Boston University, School of Medicine, 670 Albany Street, Suite 504, Boston, MA 02118, USA.
  8. Department of Life Sciences, Faculty of Natural Sciences, Imperial College London, London SW7 2AZ, UK.
  9. Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, Sahlgrenska Academy, University of Gothenburg, PO Box 440, 405 30 Gothenburg, Sweden.
  10. Institute of Biological Chemistry, Academia Sinica, 128, Academia Road Sec. 2, Nankang, Taipei 115, Taiwan.
  11. Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, Potsdam 14424, Germany.
  12. Department of Chemistry, Indiana University, 800 E. Kirkwood Avenue, Bloomington, IN 47405, USA.
  13. Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA 30602, USA.
  14. Max Planck Institute for Dynamics of Complex Technical Systems, Bioprocess Engineering, 39106 Magdeburg, Germany.
  15. NIBRT GlycoScience Group, NIBRT-National Institute for Bioprocessing Research and Training, Fosters Avenue, Mount Merrion, Blackrock, Co., Dublin, Ireland.
  16. Department of Biochemistry, Glycobiology Institute, University of Oxford, Oxford OX1 3QU, UK.
  17. Beilstein-Institut, Trakehner Str. 7-9, 60487 Frankfurt am Main, Germany.
  18. Emory Comprehensive Glycomics Core, Emory University School of Medicine, Atlanta, GA 30322, USA.

PMID: 27993942 PMCID: PMC5444268 DOI: 10.1093/glycob/cww118

Abstract

MIRAGE (Minimum Information Required for A Glycomics Experiment) is an initiative that was created by experts in the fields of glycobiology, glycoanalytics and glycoinformatics to produce guidelines for reporting results from the diverse types of experiments and analyses used in structural and functional studies of glycans in the scientific literature. As a sequel to the guidelines for sample preparation (Struwe et al. 2016, Glycobiology, 26:907-910) and mass spectrometry  data (Kolarich et al. 2013, Mol. Cell Proteomics, 12:991-995), here we present the first version of guidelines intended to improve the standards for reporting data from glycan microarray analyses. For each of eight areas in the workflow of a glycan microarray experiment, we provide guidelines for the minimal information that should be provided in reporting results. We hope that the MIRAGE glycan microarray guidelines proposed here will gain broad acceptance by the community, and will facilitate interpretation and reproducibility of the glycan microarray results with implications in comparison of data from different laboratories and eventual deposition of glycan microarray data in international databases.

© The Author 2016. Published by Oxford University Press.

Keywords: MIRAGE; glycan microarrays; glycans; glycobiology; glycomics

References

  1. J Biol Chem. 2006 Mar 3;281(9):5771-9 - PubMed
  2. ScientificWorldJournal. 2009 May 29;9:420-3 - PubMed
  3. Genome Biol. 2002;3(12):REVIEWS1034 - PubMed
  4. Glycobiology. 2014 May;24(5):402-6 - PubMed
  5. Nat Genet. 2001 Dec;29(4):365-71 - PubMed
  6. Proc Natl Acad Sci U S A. 2004 Dec 7;101(49):17033-8 - PubMed
  7. Eur J Biochem. 1990 May 20;189(3):499-507 - PubMed
  8. Sci Rep. 2016 Jan 19;6:19509 - PubMed
  9. Glycobiology. 2003 Nov;13(11):749-54 - PubMed
  10. Methods Mol Biol. 2015;1273:193-202 - PubMed
  11. Glycoconj J. 2008 Jan;25(1):59-68 - PubMed
  12. Glycobiology. 2016 Sep;26(9):907-910 - PubMed
  13. Bioinformatics. 2014 Dec 1;30(23):3417-8 - PubMed
  14. Glycobiology. 2012 Apr;22(4):552-60 - PubMed
  15. J Biol Chem. 2014 Jun 6;289(23):16462-77 - PubMed
  16. J Biol Chem. 2012 Dec 28;287(53):44784-99 - PubMed
  17. Mol Biosyst. 2009 Oct;5(10):1087-104 - PubMed
  18. Anal Biochem. 1980 Dec;109(2):399-402 - PubMed
  19. Curr Opin Struct Biol. 2003 Oct;13(5):637-45 - PubMed
  20. Nature. 2000 Feb 17;403(6771):699-700 - PubMed
  21. Mol Cell Proteomics. 2014 Nov;13(11):2944-60 - PubMed
  22. Nat Methods. 2011 Jan;8(1):85-90 - PubMed
  23. Nat Biotechnol. 2002 Oct;20(10):1011-7 - PubMed
  24. Sci Transl Med. 2015 Jan 7;7(269):269ra1 - PubMed
  25. Mol Cell Proteomics. 2015 Apr;14(4):974-88 - PubMed
  26. Proc Natl Acad Sci U S A. 2014 Jun 3;111(22):E2241-50 - PubMed
  27. OMICS. 2012 Oct;16(10):497-512 - PubMed
  28. Chembiochem. 2004 Mar 5;5(3):379-82 - PubMed
  29. Methods Mol Biol. 2013;939:87-95 - PubMed
  30. Angew Chem Int Ed Engl. 2002 Oct 4;41(19):3583-6, 3513 - PubMed
  31. Bioinformatics. 2014 Mar 1;30(5):706-11 - PubMed
  32. Mol Cell Proteomics. 2013 Apr;12(4):991-5 - PubMed
  33. Curr Protoc Chem Biol. 2013;5(2):157-69 - PubMed
  34. J Am Chem Soc. 2012 Mar 14;134(10):4489-92 - PubMed
  35. Biochem Biophys Res Commun. 1985 Oct 30;132(2):474-80 - PubMed

Publication Types

Grant support