ArticleNature biotechnology2016
Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking.
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2,340 citing papers in PubMed.
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2,280 more citing papers are in PubMed but not listed here.
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Authors and funding
127 authors.
Mingxun Wang *Computer Science and Engineering, UC San Diego, La Jolla, United States.
Jeremy J Carver *Computer Science and Engineering, UC San Diego, La Jolla, United States.
Vanessa V Phelan *Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Laura M Sanchez *Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Neha Garg *Collaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Yao Peng *Department of Chemistry and Biochemistry, UC San Diego, La Jolla, United States.
Don Duy NguyenDepartment of Chemistry and Biochemistry, UC San Diego, La Jolla, United States.
Jeramie WatrousCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Clifford A KaponoDepartment of Chemistry and Biochemistry, UC San Diego, La Jolla, United States.
Tal Luzzatto-KnaanCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Carla PortoCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Amina BouslimaniCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Alexey V MelnikCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Michael J MeehanCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Wei-Ting LiuDepartment of Microbiology and Immunology, Stanford University, Palo Alto, United States.
Max CrüsemannCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Paul D BoudreauCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Eduardo EsquenaziSirenas Marine Discovery, San Diego, United States.
Mario Sandoval-CalderónCentro de Ciencias Genómicas, Universidad Nacional Autonoma de Mexico, Cuernavaca, Mexico.
Roland D KerstenSalk Institute, Salk Institute, La Jolla, United States.
Laura A PaceCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Robert A QuinnBiology Department, San Diego State University, San Diego, United States.
Katherine R DuncanScottish Association for Marine Science, Scottish Marine Institute, Oban, United Kingdom.
Cheng-Chih HsuDepartment of Chemistry and Biochemistry, UC San Diego, La Jolla, United States.
Dimitrios J FlorosDepartment of Chemistry and Biochemistry, UC San Diego, La Jolla, United States.
Ronnie G GavilanCenter for Drug Discovery and Biodiversity, INDICASAT, City of Knowledge, Panama.
Karin KleigreweCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Trent NorthenGenome Dynamics, Lawrence Berkeley National Laboratory, Berkeley, United States.
Rachel J DuttonFAS Center for Systems Biology, Harvard, Cambridge, United States.
Delphine ParrotProduits naturels - Synthèses - Chimie Médicinale, University of Rennes 1, Rennes Cedex, France.
Erin E CarlsonChemistry, University of Minnesota, Minneapolis, United States.
Bertrand AigleDynamique des Génomes et Adaptation Microbienne, University of Lorraine, Vandœuvre-lès-Nancy, France.
Charlotte F MichelsenDepartment of Systems Biology, Technical University of Denmark, Lyngby, Denmark.
Lars JelsbakDepartment of Systems Biology, Technical University of Denmark, Lyngby, Denmark.
Christian SohlenkampCentro de Ciencias Genómicas, Universidad Nacional Autonoma de Mexico, Cuernavaca, Mexico.
Pavel PevznerCenter for Computational Mass Spectrometry, UC San Diego, La Jolla, United States.
Anna EdlundMicrobial and Environmental Genomics, J. Craig Venter Institute, La Jolla, United States.
Jeffrey McLeanDepartment of Periodontics, University of Washington, Seattle, United States.
Jörn PielInstitute of Microbiology, ETH Zurich, Zurich, Switzerland.
Brian T MurphyDepartment of Medicinal Chemistry and Pharmacognosy, University of Illinois Chicago, Chicago, United States.
Lena GerwickCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Chih-Chuang LiawDepartment of Marine Biotechnology and Resources, National Sun Yat-sen University, Kaohsiung, Taiwan.
Yu-Liang YangAgricultural Biotechnology Research Center, Academia Sinica, Taipei, Taiwan.
Hans-Ulrich HumpfInstitute of Food Chemistry, University of Münster, Münster, Germany.
Maria MaanssonDepartment of Systems Biology, Technical University of Denmark, Lyngby, Denmark.
Robert A KeyzersSchool of Chemical & Physical Sciences, and Centre for Biodiscovery, Victoria University of Wellington, Wellington, New Zealand.
Amy C SimsGillings School of Global Public Health, Department of Epidemiology, UNC Chapel Hill, Chapel Hill, United States.
Andrew R JohnsonDepartment of Chemistry, Indiana University, Bloomington, United States.
Ashley M SidebottomDepartment of Chemistry, Indiana University, Bloomington, United States.
Brian E SedioSmithsonian Tropical Research Institute, Ancón, Panama.
Andreas KlitgaardDepartment of Systems Biology, Technical University of Denmark, Lyngby, Denmark.
Charles B LarsonCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Cristopher A Boya PCenter for Drug Discovery and Biodiversity, INDICASAT, City of Knowledge, Panama.
Daniel Torres-MendozaCenter for Drug Discovery and Biodiversity, INDICASAT, City of Knowledge, Panama.
David J GonzalezSkaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Denise B SilvaSchool of Pharmaceutical Sciences of Ribeirao Preto, University of São Paulo, São Paulo, Brazil.
Lucas M MarquesSchool of Pharmaceutical Sciences of Ribeirao Preto, University of São Paulo, São Paulo, Brazil.
Daniel P DemarqueSchool of Pharmaceutical Sciences of Ribeirao Preto, University of São Paulo, São Paulo, Brazil.
Egle PociuteSirenas Marine Discovery, San Diego, United States.
Ellis C O'NeillCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Enora BriandCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Eric J N HelfrichInstitute of Microbiology, ETH Zurich, Zurich, Switzerland.
Eve A GranatoskyDepartment of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, United States.
Evgenia GlukhovCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Florian RyffelInstitute of Microbiology, ETH Zurich, Zurich, Switzerland.
Hailey HousonSirenas Marine Discovery, San Diego, United States.
Hosein MohimaniCenter for Computational Mass Spectrometry, UC San Diego, La Jolla, United States.
Jenan J KharbushCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Yi ZengDepartment of Chemistry and Biochemistry, UC San Diego, La Jolla, United States.
Julia A VorholtInstitute of Microbiology, ETH Zurich, Zurich, Switzerland.
Kenji L KuritaPBSci-Chemistry & Biochemistry Department, UC Santa Cruz, Santa Cruz, United States.
Pep CharusantiDepartment of Bioengineering, UC San Diego, La Jolla, United States.
Kerry L McPhailDepartment of Pharmaceutical Sciences, College of Pharmacy, Oregon State University, Corvallis, United States.
Kristian Fog NielsenDepartment of Systems Biology, Technical University of Denmark, Lyngby, Denmark.
Lisa VuongSirenas Marine Discovery, San Diego, United States.
Maryam ElfekiDepartment of Medicinal Chemistry and Pharmacognosy, University of Illinois Chicago, Chicago, United States.
Matthew F TraxlerDepartment of Plant and Microbial Biology, UC Berkeley, Berkeley, United States.
Niclas EngeneDepartment of Biological Sciences, Florida International University, Miami, United States.
Nobuhiro KoyamaCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Oliver B ViningDepartment of Pharmaceutical Sciences, College of Pharmacy, Oregon State University, Corvallis, United States.
Ralph BaricGillings School of Global Public Health, Department of Epidemiology, UNC Chapel Hill, Chapel Hill, United States.
Ricardo R SilvaSchool of Pharmaceutical Sciences of Ribeirao Preto, University of São Paulo, São Paulo, Brazil.
Samantha J MascuchCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Sophie TomasiProduits naturels - Synthèses - Chimie Médicinale, University of Rennes 1, Rennes Cedex, France.
Stefan JenkinsGenome Dynamics, Lawrence Berkeley National Laboratory, Berkeley, United States.
Venkat MacherlaSirenas Marine Discovery, San Diego, United States.
Thomas HoffmanDepartment of Pharmaceutical Biotechnology, Helmholtz Institute for Pharmaceutical Research Saarland, Saarbrücken, Germany.
Vinayak AgarwalCenter for Oceans and Human Health, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Philip G WilliamsDepartment of Chemistry, University of Hawaii at Manoa, Honolulu, United States.
Jingqui DaiDepartment of Chemistry, University of Hawaii at Manoa, Honolulu, United States.
Ram NeupaneDepartment of Chemistry, University of Hawaii at Manoa, Honolulu, United States.
Joshua GurrDepartment of Chemistry, University of Hawaii at Manoa, Honolulu, United States.
Andrés M C RodríguezSchool of Pharmaceutical Sciences of Ribeirao Preto, University of São Paulo, São Paulo, Brazil.
Anne LamsaDivision of Biological Sciences, UC San Diego, La Jolla, United States.
Chen ZhangDepartment of Nanoengineering, UC San Diego, La Jolla, United States.
Kathleen DorresteinCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Brendan M DugganCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Jehad AlmalitiCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Pierre-Marie AllardSchool of Pharmaceutical Sciences, University of Geneva, Geneva, Switzerland.
Prasad PhapaleStructural and Computational Biology, European Molecular Biology Laboratory, Heidelberg, Germany.
Louis-Felix NothiasInstitut de Chimie des Substances Naturelles, CNRS-ICSN, UPR 2301, Labex CEBA, University of Paris-Saclay, Gif-sur-Yvette, France.
Theodore AlexandrovStructural and Computational Biology, European Molecular Biology Laboratory, Heidelberg, Germany.
Marc LitaudonInstitut de Chimie des Substances Naturelles, CNRS-ICSN, UPR 2301, Labex CEBA, University of Paris-Saclay, Gif-sur-Yvette, France.
Jean-Luc WolfenderSchool of Pharmaceutical Sciences, University of Geneva, Geneva, Switzerland.
Jennifer E KyleBiological Sciences, Pacific Northwest National Laboratory, Richland, United States.
Thomas O MetzBiological Sciences, Pacific Northwest National Laboratory, Richland, United States.
Tyler PeryeaNational Center for Advancing Translational Sciences, National Institute of Health, Rockville, United States.
Dac-Trung NguyenNational Center for Advancing Translational Sciences, National Institute of Health, Rockville, United States.
Danielle VanLeerNational Center for Advancing Translational Sciences, National Institute of Health, Rockville, United States.
Paul ShinnNational Center for Advancing Translational Sciences, National Institute of Health, Rockville, United States.
Ajit JadhavNational Center for Advancing Translational Sciences, National Institute of Health, Rockville, United States.
Rolf MüllerDepartment of Pharmaceutical Biotechnology, Helmholtz Institute for Pharmaceutical Research Saarland, Saarbrücken, Germany.
Katrina M WatersBiological Sciences, Pacific Northwest National Laboratory, Richland, United States.
Wenyuan ShiSchool of Dentistry, UC Los Angeles, Los Angeles, United States.
Xueting LiuInstitute of Microbiology, Chinese Academy of Sciences, Beijing, China.
Lixin ZhangInstitute of Microbiology, Chinese Academy of Sciences, Beijing, China.
Rob KnightDepartment of Pediatrics, UC San Diego, La Jolla, United States.
Paul R JensenCenter for Marine Biotechnology and Biomedicine, Scripps Institute of Oceanography, UC San Diego, La Jolla, United States.
Bernhard O PalssonDepartment of Bioengineering, UC San Diego, La Jolla, United States.
Kit PoglianoDivision of Biological Sciences, UC San Diego, La Jolla, United States.
Roger G LiningtonPBSci-Chemistry & Biochemistry Department, UC Santa Cruz, Santa Cruz, United States.
Marcelino GutiérrezCenter for Drug Discovery and Biodiversity, INDICASAT, City of Knowledge, Panama.
Norberto P LopesSchool of Pharmaceutical Sciences of Ribeirao Preto, University of São Paulo, São Paulo, Brazil.
William H GerwickCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Bradley S MooreCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Pieter C DorresteinCollaborative Mass Spectrometry Innovation Center, Skaggs School of Pharmacy and Pharmaceutical Sciences, UC San Diego, La Jolla, United States.
Nuno BandeiraCenter for Computational Mass Spectrometry, UC San Diego, La Jolla, United States.
Funding
Systems Biology Identifies Restriction Factors for West Nile VirusU19AI106772 · NIAID · UNIVERSITY OF WISCONSIN-MADISON · PI KAWAOKA, YOSHIHIRO · 2013 to 2017
$26.1MUCSD/SDSU IRACDAK12GM068524 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI TREJO, JOANN · 2003 to 2025
$24.4MSAN DIEGO CLINICAL AND TRANSLATIONAL RESEARCH INSTITUTEUL1RR031980 · NCRR · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI FIRESTEIN, GARY S · 2010 to 2011
$14.0MSystems Biology Approach to Redefine Susceptibility Testing and Treatment of MDR Pathogens in the Context of Host ImmunityU01AI124316 · NIAID · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI PALSSON, BERNHARD O · 2016 to 2020
$10.2MUrgent Covid-19 Revision to the Center for High-Throughput Functional Annotation of Natural ProductsU41AT008718 · NCCIH · UT SOUTHWESTERN MEDICAL CENTER · PI CECH, NADJA B, LININGTON, ROGER G · 2015 to 2024
$10.1MTrainingP41GM103484 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI BAFNA, VINEET, BANDEIRA, NUNO · 2012 to 2018
$8.7MICBG: "Training, Conservation and Drug Discovery using Panamanian MicroorganismsU01TW006634 · FIC · SMITHSONIAN INSTITUTION · PI GERWICK, WILLIAM HENRY · 2003 to 2013
$7.8MTraining Grant in GastroenterologyT32DK007202 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI GHOSH, PRADIPTA · 1985 to 2022
$7.7MExploration, conservation, & development of marine biodiversity in FijiU01TW007401 · FIC · GEORGIA INSTITUTE OF TECHNOLOGY · PI HAY, MARK E · 2005 to 2013
$7.4MDomestication and characterization of TM7-the most elusive oral phylumR01DE023810 · NIDCR · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI Xuesong He, Jeffrey Scott McLean · 2014 to 2026
$6.6MNatural Product Genome MiningR01GM085770 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI JENSEN, PAUL R, MOORE, BRADLEY S · 2009 to 2024
$5.8MThe USP Center for Drug Discovery and ConservationU19TW007401 · FIC · GEORGIA INSTITUTE OF TECHNOLOGY · PI HAY, MARK E · 2014 to 2018
$5.3MFIC NIH HHS U01 TW006634FIC NIH HHS U01 TW007401FIC NIH HHS U19 TW007401NCCIH NIH HHS U41 AT008718NCRR NIH HHS S10 RR029121NCRR NIH HHS UL1 RR031980NIAID NIH HHS HHSN272200800060CNIAID NIH HHS R01 AI095125NIAID NIH HHS R21 AI085540NIAID NIH HHS U01 AI124316NIAID NIH HHS U19 AI106772NIDCR NIH HHS K99 DE024543NIDCR NIH HHS R00 DE024543NIDCR NIH HHS R01 DE020102NIDCR NIH HHS R01 DE023810NIDDK NIH HHS T32 DK007202NIGMS NIH HHS F32 GM089044NIGMS NIH HHS K01 GM103809NIGMS NIH HHS K12 GM068524NIGMS NIH HHS P41 GM103484NIGMS NIH HHS R01 GM085770NIGMS NIH HHS R01 GM094802NIGMS NIH HHS R01 GM095373NIGMS NIH HHS R01 GM097509NIGMS NIH HHS T32 GM075762
Abstract
The potential of the diverse chemistries present in natural products (NP) for biotechnology and medicine remains untapped because NP databases are not searchable with raw data and the NP community has no way to share data other than in published papers. Although mass spectrometry (MS) techniques are well-suited to high-throughput characterization of NP, there is a pressing need for an infrastructure to enable sharing and curation of data. We present Global Natural Products Social Molecular Networking (GNPS; http://gnps.ucsd.edu), an open-access knowledge base for community-wide organization and sharing of raw, processed or identified tandem mass (MS/MS) spectrometry data. In GNPS, crowdsourced curation of freely available community-wide reference MS libraries will underpin improved annotations. Data-driven social-networking should facilitate identification of spectra and foster collaborations. We also introduce the concept of 'living data' through continuous reanalysis of deposited data.
Indexed as
Databases, ChemicalBiological ProductsDatabase Management SystemsData CurationInformation DisseminationInformation Storage and RetrievalInternationalityMass SpectrometryBiological Products
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