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  • Rojas-Macias, Miguel A.,1979University of Gothenburg,Gothenburg University,Göteborgs universitet,Institutionen för biomedicin, avdelningen för medicinsk kemi och cellbiologi,Institute of Biomedicine, Department of Medical Biochemistry and Cell Biology (author)

Towards a standardized bioinformatics infrastructure for N- and O-glycomics

  • Article/chapterEnglish2019

Publisher, publication year, extent ...

  • 2019-07-22
  • Springer Science and Business Media LLC,2019

Numbers

  • LIBRIS-ID:oai:gup.ub.gu.se/282836
  • https://gup.ub.gu.se/publication/282836URI
  • https://doi.org/10.1038/s41467-019-11131-xDOI
  • https://lup.lub.lu.se/record/93e00fe5-1261-46bc-b7d5-bf1c29fc3a27URI

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  • Language:English

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  • Subject category:ref swepub-contenttype
  • Subject category:art swepub-publicationtype

Notes

  • The mass spectrometry (MS)-based analysis of free polysaccharides and glycans released from proteins, lipids and proteoglycans increasingly relies on databases and software. Here, we review progress in the bioinformatics analysis of protein-released N- and O-linked glycans (N-and O-glycomics) and propose an e-infrastructure to overcome current deficits in data and experimental transparency. This workflow enables the standardized submission of MS-based glycomics information into the public repository UniCarb-DR. It implements the MIRAGE (Minimum Requirement for A Glycomics Experiment) reporting guidelines, storage of unprocessed MS data in the GlycoPOST repository and glycan structure registration using the GlyTouCan registry, thereby supporting the development and extension of a glycan structure knowledgebase.

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  • Mariethoz, J.University of Geneva (author)
  • Andersson, PeterUniversity of Gothenburg,Gothenburg University,Göteborgs universitet,Institutionen för biomedicin, avdelningen för medicinsk kemi och cellbiologi,Institute of Biomedicine, Department of Medical Biochemistry and Cell Biology (author)
  • Jin, ChunshengUniversity of Gothenburg,Gothenburg University,Göteborgs universitet,Institutionen för biomedicin, avdelningen för medicinsk kemi och cellbiologi,Institute of Biomedicine, Department of Medical Biochemistry and Cell Biology(Swepub:gu)xjinch (author)
  • Venkatakrishnan, Vignesh,1987University of Gothenburg,Gothenburg University,Göteborgs universitet,Institutionen för biomedicin, avdelningen för medicinsk kemi och cellbiologi,Institute of Biomedicine, Department of Medical Biochemistry and Cell Biology(Swepub:gu)xvenvi (author)
  • Aoki, N. P.SparqLite LLC. (author)
  • Shinmachi, D.SparqLite LLC. (author)
  • Ashwood, C.Medical College of Wisconsin (author)
  • Madunic, K.Leiden University (author)
  • Zhang, T.Leiden University (author)
  • Miller, R. L.University of Copenhagen (author)
  • Horlacher, O.Swiss Institute for Bioinformatics (SIB) (author)
  • Struwe, W. B.University of Oxford (author)
  • Watanabe, Y.Niigata University (author)
  • Okuda, S.Niigata University (author)
  • Levander, FredrikLund University,Lunds universitet,Institutionen för immunteknologi,Institutioner vid LTH,Lunds Tekniska Högskola,Department of Immunotechnology,Departments at LTH,Faculty of Engineering, LTH,National Bioinformatics Infrastructure Sweden (NBIS), SciLifeLab(Swepub:lu)tmb-fle (author)
  • Kolarich, D.ARC Centre of Excellence for Nanoscale BioPhotonics (author)
  • Rudd, P. M.A*Star, Bioprocessing Technology Institute (BTI) (author)
  • Wuhrer, M.Leiden University (author)
  • Kettner, C.Beilstein Institute for the Advancement of Chemical Sciences (author)
  • Packer, N. H.ARC Centre of Excellence for Nanoscale BioPhotonics (author)
  • Aoki-Kinoshita, K. F.Soka University (author)
  • Lisacek, F.University of Geneva (author)
  • Karlsson, N. G.University of Gothenburg (author)
  • Göteborgs universitetInstitutionen för biomedicin, avdelningen för medicinsk kemi och cellbiologi (creator_code:org_t)

Related titles

  • In:Nature Communications: Springer Science and Business Media LLC102041-1723

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