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

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

Rojas-Macias, Miguel A., 1979 (author): University 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

Mariethoz, J. (author): University of Geneva

Andersson, Peter (author): University 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

Jin, Chunsheng (author): University 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

Venkatakrishnan, Vignesh, 1987 (author): University 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

Aoki, N. P. (author): SparqLite LLC.

Shinmachi, D. (author): SparqLite LLC.

Ashwood, C. (author): Medical College of Wisconsin

Madunic, K. (author): Leiden University

Zhang, T. (author): Leiden University

Miller, R. L. (author): University of Copenhagen

Horlacher, O. (author): Swiss Institute for Bioinformatics (SIB)

Struwe, W. B. (author): University of Oxford

Watanabe, Y. (author): Niigata University

Okuda, S. (author): Niigata University

Levander, Fredrik (author): Lund 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

Kolarich, D. (author): ARC Centre of Excellence for Nanoscale BioPhotonics

Rudd, P. M. (author): A*Star, Bioprocessing Technology Institute (BTI)

Wuhrer, M. (author): Leiden University

Kettner, C. (author): Beilstein Institute for the Advancement of Chemical Sciences

Packer, N. H. (author): ARC Centre of Excellence for Nanoscale BioPhotonics

Aoki-Kinoshita, K. F. (author): Soka University

Lisacek, F. (author): University of Geneva

Karlsson, N. G. (author): University of Gothenburg

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(creator_code:org_t)

2019-07-22
2019
English.
In: Nature Communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 10

Related links:: https://www.nature.c...; show more...; http://dx.doi.org/10... (free); https://gup.ub.gu.se...; https://doi.org/10.1...; https://lup.lub.lu.s...; show less...

Journal article (peer-reviewed)

Abstract Subject headings

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.

Subject headings

NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
MEDICIN OCH HÄLSOVETENSKAP -- Medicinsk bioteknologi -- Biomedicinsk laboratorievetenskap/teknologi (hsv//swe)
MEDICAL AND HEALTH SCIENCES -- Medical Biotechnology -- Biomedical Laboratory Science/Technology (hsv//eng)

Keyword

mass-spectrometry
minimum information
quantitative glycomics
unicarb-db
proteomics
database
glycosylation
glycans
disease
platform
Science & Technology - Other Topics

Publication and Content Type

ref (subject category)
art (subject category)

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NATURAL SCIENCES: NATURAL SCIENCES; and Biological Scien ...; and Biochemistry and ...

MEDICAL AND HEALTH SCIENCES: MEDICAL AND HEAL ...; and Medical Biotechn ...; and Biomedical Labor ...

Articles in the publication: Nature Communica ...

By the university: University of Gothenburg; Lund University

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