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The Proteomics Standards Initiative Standardized Formats for Spectral Libraries and Fragment Ion Peak Annotations: mzSpecLib and mzPAF.

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Title: The Proteomics Standards Initiative Standardized Formats for Spectral Libraries and Fragment Ion Peak Annotations: mzSpecLib and mzPAF.
Authors: Klein J; Program for Bioinformatics, Boston University, Boston, Massachusetts 02215, United States., Lam H; Department of Chemical and Biological Engineering, The Hong Kong University of Science and Technology, Clear Water Bay, 999077 Hong Kong, P. R. China., Mak TD; Mass Spectrometry Data Center, National Institute of Standards and Technology, 100 Bureau Drive, Gaithersburg, Maryland 20899, United States., Bittremieux W; Department of Computer Science, University of Antwerp, 2020 Antwerpen, Belgium., Perez-Riverol Y; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom., Gabriels R; VIB-UGent Center for Medical Biotechnology, VIB, 9052 Ghent, Belgium.; Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences, Ghent University, 9052 Ghent, Belgium., Shofstahl J; Thermo Fisher Scientific, 355 River Oaks Parkway, San Jose, California 95134, United States., Hecht H; RECETOX, Faculty of Science, Masaryk University, Kotlářská 2, 60200 Brno, Czech Republic., Binz PA; Lausanne University Hospital, CH-1011 Lausanne, Switzerland., Kawano S; Database Center for Life Science, Joint Support Center for Data Science Research, Research Organization of Information and Systems, Chiba 277-0871, Japan.; School of Frontier Engineering, Kitasato University, Sagamihara 252-0373, Japan., Van Den Bossche T; VIB-UGent Center for Medical Biotechnology, VIB, 9052 Ghent, Belgium.; Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences, Ghent University, 9052 Ghent, Belgium., Carver J; Center for Computational Mass Spectrometry, Department of Computer Science and Engineering, University of California, San Diego, California 92093-0404, United States., Neely BA; National Institute of Standards and Technology (NIST) Charleston, Charleston, South Carolina 29412, United States., Mendoza L; Institute for Systems Biology, Seattle, Washington 98109, United States., Suomi T; Turku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland., Claeys T; VIB-UGent Center for Medical Biotechnology, VIB, 9052 Ghent, Belgium.; Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences, Ghent University, 9052 Ghent, Belgium., Payne T; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom., Schulte D; Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute of Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584, CH, Utrecht, The Netherlands., Sun Z; Institute for Systems Biology, Seattle, Washington 98109, United States., Hoffmann N; Institute for Bio- and Geosciences (IBG-5), Forschungszentrum Jülich GmbH, 52428 Jülich, Germany., Zhu Y; National Center for Protein Sciences (Beijing), Beijing Institute of Lifeomics, #38, Life Science Park, Changping District, Beijing 102206, China., Neumann S; Computational Plant Biochemistry, Leibniz Institute of Plant Biochemistry, 06120 Halle, Germany.; German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig, 04103 Leipzig, Germany., Jones AR; Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool L69 3BX, United Kingdom., Bandeira N; Center for Computational Mass Spectrometry, Department of Computer Science and Engineering, University of California, San Diego, California 92093-0404, United States.; Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California 92093, United States., Vizcaíno JA; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom., Deutsch EW; Institute for Systems Biology, Seattle, Washington 98109, United States.
Source: Analytical chemistry [Anal Chem] 2024 Nov 19; Vol. 96 (46), pp. 18491-18501. Date of Electronic Publication: 2024 Nov 08.
Publication Type: Journal Article; Research Support, N.I.H., Extramural
Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 0370536 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1520-6882 (Electronic) Linking ISSN: 00032700 NLM ISO Abbreviation: Anal Chem Subsets: MEDLINE
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China.<br /><searchLink fieldCode="AU" term="%22Mak+TD%22">Mak TD</searchLink>; Mass Spectrometry Data Center, National Institute of Standards and Technology, 100 Bureau Drive, Gaithersburg, Maryland 20899, United States.<br /><searchLink fieldCode="AU" term="%22Bittremieux+W%22">Bittremieux W</searchLink>; Department of Computer Science, University of Antwerp, 2020 Antwerpen, Belgium.<br /><searchLink fieldCode="AU" term="%22Perez-Riverol+Y%22">Perez-Riverol Y</searchLink>; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.<br /><searchLink fieldCode="AU" term="%22Gabriels+R%22">Gabriels R</searchLink>; VIB-UGent Center for Medical Biotechnology, VIB, 9052 Ghent, Belgium.; Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences, Ghent University, 9052 Ghent, Belgium.<br /><searchLink fieldCode="AU" term="%22Shofstahl+J%22">Shofstahl J</searchLink>; Thermo Fisher Scientific, 355 River Oaks Parkway, San Jose, California 95134, United States.<br /><searchLink fieldCode="AU" term="%22Hecht+H%22">Hecht H</searchLink>; RECETOX, Faculty of Science, Masaryk University, Kotlářská 2, 60200 Brno, Czech Republic.<br /><searchLink fieldCode="AU" term="%22Binz+PA%22">Binz PA</searchLink>; Lausanne University Hospital, CH-1011 Lausanne, Switzerland.<br /><searchLink fieldCode="AU" term="%22Kawano+S%22">Kawano S</searchLink>; Database Center for Life Science, Joint Support Center for Data Science Research, Research Organization of Information and Systems, Chiba 277-0871, Japan.; School of Frontier Engineering, Kitasato University, Sagamihara 252-0373, Japan.<br /><searchLink fieldCode="AU" term="%22Van+Den+Bossche+T%22">Van Den Bossche T</searchLink>; VIB-UGent Center for Medical Biotechnology, VIB, 9052 Ghent, Belgium.; Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences, Ghent University, 9052 Ghent, Belgium.<br /><searchLink fieldCode="AU" term="%22Carver+J%22">Carver J</searchLink>; Center for Computational Mass Spectrometry, Department of Computer Science and Engineering, University of California, San Diego, California 92093-0404, United States.<br /><searchLink fieldCode="AU" term="%22Neely+BA%22">Neely BA</searchLink>; National Institute of Standards and Technology (NIST) Charleston, Charleston, South Carolina 29412, United States.<br /><searchLink fieldCode="AU" term="%22Mendoza+L%22">Mendoza L</searchLink>; Institute for Systems Biology, Seattle, Washington 98109, United States.<br /><searchLink fieldCode="AU" term="%22Suomi+T%22">Suomi T</searchLink>; Turku Bioscience Centre, University of Turku and Åbo Akademi University, FI-20520 Turku, Finland.<br /><searchLink fieldCode="AU" term="%22Claeys+T%22">Claeys T</searchLink>; VIB-UGent Center for Medical Biotechnology, VIB, 9052 Ghent, Belgium.; Department of Biomolecular Medicine, Faculty of Medicine and Health Sciences, Ghent University, 9052 Ghent, Belgium.<br /><searchLink fieldCode="AU" term="%22Payne+T%22">Payne T</searchLink>; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.<br /><searchLink fieldCode="AU" term="%22Schulte+D%22">Schulte D</searchLink>; 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Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Liverpool L69 3BX, United Kingdom.<br /><searchLink fieldCode="AU" term="%22Bandeira+N%22">Bandeira N</searchLink>; Center for Computational Mass Spectrometry, Department of Computer Science and Engineering, University of California, San Diego, California 92093-0404, United States.; Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California 92093, United States.<br /><searchLink fieldCode="AU" term="%22Vizcaíno+JA%22">Vizcaíno JA</searchLink>; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.<br /><searchLink fieldCode="AU" term="%22Deutsch+EW%22">Deutsch EW</searchLink>; Institute for Systems Biology, Seattle, Washington 98109, United States.
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  Data: <searchLink fieldCode="JN" term="%220370536%22">Analytical chemistry</searchLink> [Anal Chem] 2024 Nov 19; Vol. 96 (46), pp. 18491-18501. <i>Date of Electronic Publication: </i>2024 Nov 08.
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