A cheminformatics approach to characterize metabolomes in stable-isotope-labeled organisms View Full Text


Ontology type: schema:ScholarlyArticle     


Article Info

DATE

2019-04

AUTHORS

Hiroshi Tsugawa, Ryo Nakabayashi, Tetsuya Mori, Yutaka Yamada, Mikiko Takahashi, Amit Rai, Ryosuke Sugiyama, Hiroyuki Yamamoto, Taiki Nakaya, Mami Yamazaki, Rik Kooke, Johanna A. Bac-Molenaar, Nihal Oztolan-Erol, Joost J. B. Keurentjes, Masanori Arita, Kazuki Saito

ABSTRACT

We report a computational approach (implemented in MS-DIAL 3.0; http://prime.psc.riken.jp/) for metabolite structure characterization using fully 13C-labeled and non-labeled plants and LC-MS/MS. Our approach facilitates carbon number determination and metabolite classification for unknown molecules. Applying our method to 31 tissues from 12 plant species, we assigned 1,092 structures and 344 formulae to 3,604 carbon-determined metabolite ions, 69 of which were found to represent structures currently not listed in metabolome databases. More... »

PAGES

295-298

Identifiers

URI

http://scigraph.springernature.com/pub.10.1038/s41592-019-0358-2

DOI

http://dx.doi.org/10.1038/s41592-019-0358-2

DIMENSIONS

https://app.dimensions.ai/details/publication/pub.1113060568

PUBMED

https://www.ncbi.nlm.nih.gov/pubmed/30923379


Indexing Status Check whether this publication has been indexed by Scopus and Web Of Science using the SN Indexing Status Tool
Incoming Citations Browse incoming citations for this publication using opencitations.net

JSON-LD is the canonical representation for SciGraph data.

TIP: You can open this SciGraph record using an external JSON-LD service: JSON-LD Playground Google SDTT

[
  {
    "@context": "https://springernature.github.io/scigraph/jsonld/sgcontext.json", 
    "about": [
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0601", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biochemistry and Cell Biology", 
        "type": "DefinedTerm"
      }, 
      {
        "id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/06", 
        "inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/", 
        "name": "Biological Sciences", 
        "type": "DefinedTerm"
      }
    ], 
    "author": [
      {
        "affiliation": {
          "alternateName": "RIKEN", 
          "id": "https://www.grid.ac/institutes/grid.7597.c", 
          "name": [
            "RIKEN Center for Sustainable Resource Science, Yokohama, Japan", 
            "RIKEN Center for Integrative Medical Sciences, Yokohama, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Tsugawa", 
        "givenName": "Hiroshi", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "RIKEN", 
          "id": "https://www.grid.ac/institutes/grid.7597.c", 
          "name": [
            "RIKEN Center for Sustainable Resource Science, Yokohama, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Nakabayashi", 
        "givenName": "Ryo", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "RIKEN", 
          "id": "https://www.grid.ac/institutes/grid.7597.c", 
          "name": [
            "RIKEN Center for Sustainable Resource Science, Yokohama, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Mori", 
        "givenName": "Tetsuya", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "RIKEN", 
          "id": "https://www.grid.ac/institutes/grid.7597.c", 
          "name": [
            "RIKEN Center for Sustainable Resource Science, Yokohama, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Yamada", 
        "givenName": "Yutaka", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "RIKEN", 
          "id": "https://www.grid.ac/institutes/grid.7597.c", 
          "name": [
            "RIKEN Center for Sustainable Resource Science, Yokohama, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Takahashi", 
        "givenName": "Mikiko", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Chiba University", 
          "id": "https://www.grid.ac/institutes/grid.136304.3", 
          "name": [
            "Graduate School of Pharmaceutical Sciences, Chiba University, Chiba, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Rai", 
        "givenName": "Amit", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "RIKEN", 
          "id": "https://www.grid.ac/institutes/grid.7597.c", 
          "name": [
            "RIKEN Center for Sustainable Resource Science, Yokohama, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Sugiyama", 
        "givenName": "Ryosuke", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "name": [
            "Human Metabolome Technologies, Inc, Tsuruoka, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Yamamoto", 
        "givenName": "Hiroyuki", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Chiba University", 
          "id": "https://www.grid.ac/institutes/grid.136304.3", 
          "name": [
            "Graduate School of Pharmaceutical Sciences, Chiba University, Chiba, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Nakaya", 
        "givenName": "Taiki", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Chiba University", 
          "id": "https://www.grid.ac/institutes/grid.136304.3", 
          "name": [
            "Graduate School of Pharmaceutical Sciences, Chiba University, Chiba, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Yamazaki", 
        "givenName": "Mami", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Wageningen University & Research", 
          "id": "https://www.grid.ac/institutes/grid.4818.5", 
          "name": [
            "Laboratory of Genetics, Wageningen University & Research, Wageningen, the Netherlands"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Kooke", 
        "givenName": "Rik", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Wageningen University & Research", 
          "id": "https://www.grid.ac/institutes/grid.4818.5", 
          "name": [
            "Laboratory of Genetics, Wageningen University & Research, Wageningen, the Netherlands"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Bac-Molenaar", 
        "givenName": "Johanna A.", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Wageningen University & Research", 
          "id": "https://www.grid.ac/institutes/grid.4818.5", 
          "name": [
            "Laboratory of Genetics, Wageningen University & Research, Wageningen, the Netherlands"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Oztolan-Erol", 
        "givenName": "Nihal", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Wageningen University & Research", 
          "id": "https://www.grid.ac/institutes/grid.4818.5", 
          "name": [
            "Laboratory of Genetics, Wageningen University & Research, Wageningen, the Netherlands"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Keurentjes", 
        "givenName": "Joost J. B.", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "National Institute of Genetics", 
          "id": "https://www.grid.ac/institutes/grid.288127.6", 
          "name": [
            "RIKEN Center for Sustainable Resource Science, Yokohama, Japan", 
            "National Institute of Genetics, Mishima, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Arita", 
        "givenName": "Masanori", 
        "type": "Person"
      }, 
      {
        "affiliation": {
          "alternateName": "Chiba University", 
          "id": "https://www.grid.ac/institutes/grid.136304.3", 
          "name": [
            "RIKEN Center for Sustainable Resource Science, Yokohama, Japan", 
            "Graduate School of Pharmaceutical Sciences, Chiba University, Chiba, Japan"
          ], 
          "type": "Organization"
        }, 
        "familyName": "Saito", 
        "givenName": "Kazuki", 
        "type": "Person"
      }
    ], 
    "citation": [
      {
        "id": "https://doi.org/10.1002/jms.1777", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1004783500"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1002/jms.1777", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1004783500"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/j.1365-313x.2011.04682.x", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1005783638"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.chemphyslip.2013.05.005", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1008914870"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nmeth.3393", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1011230739", 
          "https://doi.org/10.1038/nmeth.3393"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4155/bio.13.348", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016442513"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.4155/bio.13.348", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1016442513"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.3389/fpls.2016.01861", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1017045721"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/nar/gku886", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1019815317"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/jxb/err460", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1023111736"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s11306-007-0082-2", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1023480149", 
          "https://doi.org/10.1007/s11306-007-0082-2"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/1471-2105-6-144", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1025271948", 
          "https://doi.org/10.1186/1471-2105-6-144"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/1471-2105-6-144", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1025271948", 
          "https://doi.org/10.1186/1471-2105-6-144"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1093/jxb/erv176", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1026019261"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/s13321-016-0174-y", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027638027", 
          "https://doi.org/10.1186/s13321-016-0174-y"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1186/s13321-016-0174-y", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1027638027", 
          "https://doi.org/10.1186/s13321-016-0174-y"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1105/tpc.113.122242", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1028223764"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.copbio.2016.08.001", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1032583435"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s002990100320", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1034956533", 
          "https://doi.org/10.1007/s002990100320"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1007/s002990100320", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1034956533", 
          "https://doi.org/10.1007/s002990100320"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0506580102", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037705714"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1073/pnas.0506580102", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1037705714"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1111/pce.12595", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1044078708"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nbt.3597", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1045197127", 
          "https://doi.org/10.1038/nbt.3597"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.phytochem.2012.07.007", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1046243525"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nrd4510", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1052849392", 
          "https://doi.org/10.1038/nrd4510"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nrd4510", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1052849392", 
          "https://doi.org/10.1038/nrd4510"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/ac302733c", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055003552"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/ac9011599", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055071428"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/ac9011599", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055071428"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.6b00770", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055079758"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.6b00906", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1055079798"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/np50096a009", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1056236298"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/pr800226w", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1056294368"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1104/pp.15.00997", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1060841607"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.bbalip.2017.05.006", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1085408167"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b02380", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1091787762"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b02380", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1091787762"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b02380", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1091787762"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b02380", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1091787762"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b02759", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1091933791"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b02759", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1091933791"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b03929", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1092248438"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/s41467-017-01318-5", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1092599528", 
          "https://doi.org/10.1038/s41467-017-01318-5"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nmeth.4512", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1093027727", 
          "https://doi.org/10.1038/nmeth.4512"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "sg:pub.10.1038/nmeth.4512", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1093027727", 
          "https://doi.org/10.1038/nmeth.4512"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b04424", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1100722701"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.analchem.7b04424", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1100722701"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1016/j.copbio.2018.01.008", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1100834353"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.jmedchem.7b01178", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1100914208"
        ], 
        "type": "CreativeWork"
      }, 
      {
        "id": "https://doi.org/10.1021/acs.jmedchem.7b01178", 
        "sameAs": [
          "https://app.dimensions.ai/details/publication/pub.1100914208"
        ], 
        "type": "CreativeWork"
      }
    ], 
    "datePublished": "2019-04", 
    "datePublishedReg": "2019-04-01", 
    "description": "We report a computational approach (implemented in MS-DIAL 3.0; http://prime.psc.riken.jp/) for metabolite structure characterization using fully 13C-labeled and non-labeled plants and LC-MS/MS. Our approach facilitates carbon number determination and metabolite classification for unknown molecules. Applying our method to 31 tissues from 12 plant species, we assigned 1,092 structures and 344 formulae to 3,604 carbon-determined metabolite ions, 69 of which were found to represent structures currently not listed in metabolome databases.", 
    "genre": "research_article", 
    "id": "sg:pub.10.1038/s41592-019-0358-2", 
    "inLanguage": [
      "en"
    ], 
    "isAccessibleForFree": false, 
    "isFundedItemOf": [
      {
        "id": "sg:grant.7702037", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.5859350", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.3790479", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.7521981", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.6533560", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.4114636", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.3775834", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.6821617", 
        "type": "MonetaryGrant"
      }, 
      {
        "id": "sg:grant.5865090", 
        "type": "MonetaryGrant"
      }
    ], 
    "isPartOf": [
      {
        "id": "sg:journal.1033763", 
        "issn": [
          "1548-7091", 
          "1548-7105"
        ], 
        "name": "Nature Methods", 
        "type": "Periodical"
      }, 
      {
        "issueNumber": "4", 
        "type": "PublicationIssue"
      }, 
      {
        "type": "PublicationVolume", 
        "volumeNumber": "16"
      }
    ], 
    "name": "A cheminformatics approach to characterize metabolomes in stable-isotope-labeled organisms", 
    "pagination": "295-298", 
    "productId": [
      {
        "name": "readcube_id", 
        "type": "PropertyValue", 
        "value": [
          "e50e923201143b973923e41696dd6128e3d9bf7dba8fcb2714aaf706a3cdf178"
        ]
      }, 
      {
        "name": "pubmed_id", 
        "type": "PropertyValue", 
        "value": [
          "30923379"
        ]
      }, 
      {
        "name": "nlm_unique_id", 
        "type": "PropertyValue", 
        "value": [
          "101215604"
        ]
      }, 
      {
        "name": "doi", 
        "type": "PropertyValue", 
        "value": [
          "10.1038/s41592-019-0358-2"
        ]
      }, 
      {
        "name": "dimensions_id", 
        "type": "PropertyValue", 
        "value": [
          "pub.1113060568"
        ]
      }
    ], 
    "sameAs": [
      "https://doi.org/10.1038/s41592-019-0358-2", 
      "https://app.dimensions.ai/details/publication/pub.1113060568"
    ], 
    "sdDataset": "articles", 
    "sdDatePublished": "2019-04-11T13:20", 
    "sdLicense": "https://scigraph.springernature.com/explorer/license/", 
    "sdPublisher": {
      "name": "Springer Nature - SN SciGraph project", 
      "type": "Organization"
    }, 
    "sdSource": "s3://com-uberresearch-data-dimensions-target-20181106-alternative/cleanup/v134/2549eaecd7973599484d7c17b260dba0a4ecb94b/merge/v9/a6c9fde33151104705d4d7ff012ea9563521a3ce/jats-lookup/v90/0000000368_0000000368/records_78970_00000001.jsonl", 
    "type": "ScholarlyArticle", 
    "url": "https://www.nature.com/articles/s41592-019-0358-2"
  }
]
 

Download the RDF metadata as:  json-ld nt turtle xml License info

HOW TO GET THIS DATA PROGRAMMATICALLY:

JSON-LD is a popular format for linked data which is fully compatible with JSON.

curl -H 'Accept: application/ld+json' 'https://scigraph.springernature.com/pub.10.1038/s41592-019-0358-2'

N-Triples is a line-based linked data format ideal for batch operations.

curl -H 'Accept: application/n-triples' 'https://scigraph.springernature.com/pub.10.1038/s41592-019-0358-2'

Turtle is a human-readable linked data format.

curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/s41592-019-0358-2'

RDF/XML is a standard XML format for linked data.

curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/s41592-019-0358-2'


 

This table displays all metadata directly associated to this object as RDF triples.

307 TRIPLES      21 PREDICATES      65 URIs      21 LITERALS      9 BLANK NODES

Subject Predicate Object
1 sg:pub.10.1038/s41592-019-0358-2 schema:about anzsrc-for:06
2 anzsrc-for:0601
3 schema:author Nd38c1493c0304fc68bd1c4e7c53f7c9d
4 schema:citation sg:pub.10.1007/s002990100320
5 sg:pub.10.1007/s11306-007-0082-2
6 sg:pub.10.1038/nbt.3597
7 sg:pub.10.1038/nmeth.3393
8 sg:pub.10.1038/nmeth.4512
9 sg:pub.10.1038/nrd4510
10 sg:pub.10.1038/s41467-017-01318-5
11 sg:pub.10.1186/1471-2105-6-144
12 sg:pub.10.1186/s13321-016-0174-y
13 https://doi.org/10.1002/jms.1777
14 https://doi.org/10.1016/j.bbalip.2017.05.006
15 https://doi.org/10.1016/j.chemphyslip.2013.05.005
16 https://doi.org/10.1016/j.copbio.2016.08.001
17 https://doi.org/10.1016/j.copbio.2018.01.008
18 https://doi.org/10.1016/j.phytochem.2012.07.007
19 https://doi.org/10.1021/ac302733c
20 https://doi.org/10.1021/ac9011599
21 https://doi.org/10.1021/acs.analchem.6b00770
22 https://doi.org/10.1021/acs.analchem.6b00906
23 https://doi.org/10.1021/acs.analchem.7b02380
24 https://doi.org/10.1021/acs.analchem.7b02759
25 https://doi.org/10.1021/acs.analchem.7b03929
26 https://doi.org/10.1021/acs.analchem.7b04424
27 https://doi.org/10.1021/acs.jmedchem.7b01178
28 https://doi.org/10.1021/np50096a009
29 https://doi.org/10.1021/pr800226w
30 https://doi.org/10.1073/pnas.0506580102
31 https://doi.org/10.1093/jxb/err460
32 https://doi.org/10.1093/jxb/erv176
33 https://doi.org/10.1093/nar/gku886
34 https://doi.org/10.1104/pp.15.00997
35 https://doi.org/10.1105/tpc.113.122242
36 https://doi.org/10.1111/j.1365-313x.2011.04682.x
37 https://doi.org/10.1111/pce.12595
38 https://doi.org/10.3389/fpls.2016.01861
39 https://doi.org/10.4155/bio.13.348
40 schema:datePublished 2019-04
41 schema:datePublishedReg 2019-04-01
42 schema:description We report a computational approach (implemented in MS-DIAL 3.0; http://prime.psc.riken.jp/) for metabolite structure characterization using fully <sup>13</sup>C-labeled and non-labeled plants and LC-MS/MS. Our approach facilitates carbon number determination and metabolite classification for unknown molecules. Applying our method to 31 tissues from 12 plant species, we assigned 1,092 structures and 344 formulae to 3,604 carbon-determined metabolite ions, 69 of which were found to represent structures currently not listed in metabolome databases.
43 schema:genre research_article
44 schema:inLanguage en
45 schema:isAccessibleForFree false
46 schema:isPartOf N4fa53fd814ea4e7d9f9d7c5626fdc067
47 Nd87e29dafe0b453da7f911e12926be35
48 sg:journal.1033763
49 schema:name A cheminformatics approach to characterize metabolomes in stable-isotope-labeled organisms
50 schema:pagination 295-298
51 schema:productId N2b1317b592a6423e8cc426541a8925eb
52 N3da5fec1e42343988b131b896a4e7996
53 N652da5d57d1a4c96855076b3fd245eab
54 N715e5428b1324cc2b7a92ab7e68389b5
55 N98c87e0502c544be9decf544a6358676
56 schema:sameAs https://app.dimensions.ai/details/publication/pub.1113060568
57 https://doi.org/10.1038/s41592-019-0358-2
58 schema:sdDatePublished 2019-04-11T13:20
59 schema:sdLicense https://scigraph.springernature.com/explorer/license/
60 schema:sdPublisher N63739cbb27114582a82f21f7b3f03e47
61 schema:url https://www.nature.com/articles/s41592-019-0358-2
62 sgo:license sg:explorer/license/
63 sgo:sdDataset articles
64 rdf:type schema:ScholarlyArticle
65 N087d4cb904ec4ce48c2b8f3edb4ef7f1 schema:affiliation https://www.grid.ac/institutes/grid.7597.c
66 schema:familyName Sugiyama
67 schema:givenName Ryosuke
68 rdf:type schema:Person
69 N0a9f40c878ab469db08ace474db9eaee schema:affiliation https://www.grid.ac/institutes/grid.4818.5
70 schema:familyName Bac-Molenaar
71 schema:givenName Johanna A.
72 rdf:type schema:Person
73 N0cdf42ee74e04197a715d22690c34441 schema:affiliation https://www.grid.ac/institutes/grid.4818.5
74 schema:familyName Oztolan-Erol
75 schema:givenName Nihal
76 rdf:type schema:Person
77 N1c74e734c24c4ba6bf94cff38d0e2134 rdf:first N20bed5624c0743e5937e7ddcf3d5517e
78 rdf:rest Nc5bd5ae056d34bdda22f7f253a9c0496
79 N20bed5624c0743e5937e7ddcf3d5517e schema:affiliation https://www.grid.ac/institutes/grid.4818.5
80 schema:familyName Kooke
81 schema:givenName Rik
82 rdf:type schema:Person
83 N2b0b741fee79482882aa486c5b43f89c rdf:first N7b0dadae82c54f0eb8876f6aff31c76d
84 rdf:rest N1c74e734c24c4ba6bf94cff38d0e2134
85 N2b1317b592a6423e8cc426541a8925eb schema:name dimensions_id
86 schema:value pub.1113060568
87 rdf:type schema:PropertyValue
88 N2d89eeedad0c4512b2f7faa66bb0f7de rdf:first N087d4cb904ec4ce48c2b8f3edb4ef7f1
89 rdf:rest Nb124c39f35794b7d81b2449b5c639136
90 N2f7752de3fae499190d24cd56d071295 schema:affiliation https://www.grid.ac/institutes/grid.7597.c
91 schema:familyName Mori
92 schema:givenName Tetsuya
93 rdf:type schema:Person
94 N35c143d421df475db5b179889d482f65 rdf:first Nd356271565614466996eda3d17d591eb
95 rdf:rest N2b0b741fee79482882aa486c5b43f89c
96 N39a4df253bcb402cac840149317b168d rdf:first Naeb0d852f79c4f88ab766f7a38dd858f
97 rdf:rest Nf37e2d325ff24a5195007367c3df9e35
98 N3da5fec1e42343988b131b896a4e7996 schema:name pubmed_id
99 schema:value 30923379
100 rdf:type schema:PropertyValue
101 N3df9b2c1abbc4edca27c891c8a4c4c7d rdf:first Ne3456d12043746f1b2b119068bf076aa
102 rdf:rest rdf:nil
103 N4fa53fd814ea4e7d9f9d7c5626fdc067 schema:volumeNumber 16
104 rdf:type schema:PublicationVolume
105 N5f432cfcfdc9447fbb095264f186c4ff rdf:first N0cdf42ee74e04197a715d22690c34441
106 rdf:rest N39a4df253bcb402cac840149317b168d
107 N63739cbb27114582a82f21f7b3f03e47 schema:name Springer Nature - SN SciGraph project
108 rdf:type schema:Organization
109 N652da5d57d1a4c96855076b3fd245eab schema:name doi
110 schema:value 10.1038/s41592-019-0358-2
111 rdf:type schema:PropertyValue
112 N661ef589746c47938e6cd51c8ce060d1 schema:affiliation https://www.grid.ac/institutes/grid.136304.3
113 schema:familyName Rai
114 schema:givenName Amit
115 rdf:type schema:Person
116 N69a48f7ba30d4844ae822928442ce611 rdf:first N2f7752de3fae499190d24cd56d071295
117 rdf:rest N9ec9f6bd434e419cbb4bcc233068091c
118 N6eb828a99c3a4c699921453a5cf51b95 rdf:first N661ef589746c47938e6cd51c8ce060d1
119 rdf:rest N2d89eeedad0c4512b2f7faa66bb0f7de
120 N714baac8ef564afd8ded1350777b25ca schema:affiliation https://www.grid.ac/institutes/grid.7597.c
121 schema:familyName Takahashi
122 schema:givenName Mikiko
123 rdf:type schema:Person
124 N715e5428b1324cc2b7a92ab7e68389b5 schema:name readcube_id
125 schema:value e50e923201143b973923e41696dd6128e3d9bf7dba8fcb2714aaf706a3cdf178
126 rdf:type schema:PropertyValue
127 N7b0dadae82c54f0eb8876f6aff31c76d schema:affiliation https://www.grid.ac/institutes/grid.136304.3
128 schema:familyName Yamazaki
129 schema:givenName Mami
130 rdf:type schema:Person
131 N7bda8aa297c04448b0ecf5d2f821a4e9 schema:affiliation https://www.grid.ac/institutes/grid.7597.c
132 schema:familyName Nakabayashi
133 schema:givenName Ryo
134 rdf:type schema:Person
135 N91a991e49c614b728c28380354ddabff rdf:first N714baac8ef564afd8ded1350777b25ca
136 rdf:rest N6eb828a99c3a4c699921453a5cf51b95
137 N98c87e0502c544be9decf544a6358676 schema:name nlm_unique_id
138 schema:value 101215604
139 rdf:type schema:PropertyValue
140 N9b803dabe7254d8785cbf806cabc0d67 schema:name Human Metabolome Technologies, Inc, Tsuruoka, Japan
141 rdf:type schema:Organization
142 N9ec9f6bd434e419cbb4bcc233068091c rdf:first Nc7a437c2680849468b12d5720adb22af
143 rdf:rest N91a991e49c614b728c28380354ddabff
144 Naeb0d852f79c4f88ab766f7a38dd858f schema:affiliation https://www.grid.ac/institutes/grid.4818.5
145 schema:familyName Keurentjes
146 schema:givenName Joost J. B.
147 rdf:type schema:Person
148 Nb124c39f35794b7d81b2449b5c639136 rdf:first Nb1f195efc8ef4d389fc05ff96d78830f
149 rdf:rest N35c143d421df475db5b179889d482f65
150 Nb1f195efc8ef4d389fc05ff96d78830f schema:affiliation N9b803dabe7254d8785cbf806cabc0d67
151 schema:familyName Yamamoto
152 schema:givenName Hiroyuki
153 rdf:type schema:Person
154 Nc45394ffd53c4111bd784514d22b83c4 schema:affiliation https://www.grid.ac/institutes/grid.7597.c
155 schema:familyName Tsugawa
156 schema:givenName Hiroshi
157 rdf:type schema:Person
158 Nc5bd5ae056d34bdda22f7f253a9c0496 rdf:first N0a9f40c878ab469db08ace474db9eaee
159 rdf:rest N5f432cfcfdc9447fbb095264f186c4ff
160 Nc7a437c2680849468b12d5720adb22af schema:affiliation https://www.grid.ac/institutes/grid.7597.c
161 schema:familyName Yamada
162 schema:givenName Yutaka
163 rdf:type schema:Person
164 Nd356271565614466996eda3d17d591eb schema:affiliation https://www.grid.ac/institutes/grid.136304.3
165 schema:familyName Nakaya
166 schema:givenName Taiki
167 rdf:type schema:Person
168 Nd38c1493c0304fc68bd1c4e7c53f7c9d rdf:first Nc45394ffd53c4111bd784514d22b83c4
169 rdf:rest Nef0306d7f32f42b79dfdd47a7410a983
170 Nd7749cdca37a4ced97610d8fdf187c20 schema:affiliation https://www.grid.ac/institutes/grid.288127.6
171 schema:familyName Arita
172 schema:givenName Masanori
173 rdf:type schema:Person
174 Nd87e29dafe0b453da7f911e12926be35 schema:issueNumber 4
175 rdf:type schema:PublicationIssue
176 Ne3456d12043746f1b2b119068bf076aa schema:affiliation https://www.grid.ac/institutes/grid.136304.3
177 schema:familyName Saito
178 schema:givenName Kazuki
179 rdf:type schema:Person
180 Nef0306d7f32f42b79dfdd47a7410a983 rdf:first N7bda8aa297c04448b0ecf5d2f821a4e9
181 rdf:rest N69a48f7ba30d4844ae822928442ce611
182 Nf37e2d325ff24a5195007367c3df9e35 rdf:first Nd7749cdca37a4ced97610d8fdf187c20
183 rdf:rest N3df9b2c1abbc4edca27c891c8a4c4c7d
184 anzsrc-for:06 schema:inDefinedTermSet anzsrc-for:
185 schema:name Biological Sciences
186 rdf:type schema:DefinedTerm
187 anzsrc-for:0601 schema:inDefinedTermSet anzsrc-for:
188 schema:name Biochemistry and Cell Biology
189 rdf:type schema:DefinedTerm
190 sg:grant.3775834 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
191 rdf:type schema:MonetaryGrant
192 sg:grant.3790479 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
193 rdf:type schema:MonetaryGrant
194 sg:grant.4114636 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
195 rdf:type schema:MonetaryGrant
196 sg:grant.5859350 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
197 rdf:type schema:MonetaryGrant
198 sg:grant.5865090 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
199 rdf:type schema:MonetaryGrant
200 sg:grant.6533560 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
201 rdf:type schema:MonetaryGrant
202 sg:grant.6821617 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
203 rdf:type schema:MonetaryGrant
204 sg:grant.7521981 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
205 rdf:type schema:MonetaryGrant
206 sg:grant.7702037 http://pending.schema.org/fundedItem sg:pub.10.1038/s41592-019-0358-2
207 rdf:type schema:MonetaryGrant
208 sg:journal.1033763 schema:issn 1548-7091
209 1548-7105
210 schema:name Nature Methods
211 rdf:type schema:Periodical
212 sg:pub.10.1007/s002990100320 schema:sameAs https://app.dimensions.ai/details/publication/pub.1034956533
213 https://doi.org/10.1007/s002990100320
214 rdf:type schema:CreativeWork
215 sg:pub.10.1007/s11306-007-0082-2 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023480149
216 https://doi.org/10.1007/s11306-007-0082-2
217 rdf:type schema:CreativeWork
218 sg:pub.10.1038/nbt.3597 schema:sameAs https://app.dimensions.ai/details/publication/pub.1045197127
219 https://doi.org/10.1038/nbt.3597
220 rdf:type schema:CreativeWork
221 sg:pub.10.1038/nmeth.3393 schema:sameAs https://app.dimensions.ai/details/publication/pub.1011230739
222 https://doi.org/10.1038/nmeth.3393
223 rdf:type schema:CreativeWork
224 sg:pub.10.1038/nmeth.4512 schema:sameAs https://app.dimensions.ai/details/publication/pub.1093027727
225 https://doi.org/10.1038/nmeth.4512
226 rdf:type schema:CreativeWork
227 sg:pub.10.1038/nrd4510 schema:sameAs https://app.dimensions.ai/details/publication/pub.1052849392
228 https://doi.org/10.1038/nrd4510
229 rdf:type schema:CreativeWork
230 sg:pub.10.1038/s41467-017-01318-5 schema:sameAs https://app.dimensions.ai/details/publication/pub.1092599528
231 https://doi.org/10.1038/s41467-017-01318-5
232 rdf:type schema:CreativeWork
233 sg:pub.10.1186/1471-2105-6-144 schema:sameAs https://app.dimensions.ai/details/publication/pub.1025271948
234 https://doi.org/10.1186/1471-2105-6-144
235 rdf:type schema:CreativeWork
236 sg:pub.10.1186/s13321-016-0174-y schema:sameAs https://app.dimensions.ai/details/publication/pub.1027638027
237 https://doi.org/10.1186/s13321-016-0174-y
238 rdf:type schema:CreativeWork
239 https://doi.org/10.1002/jms.1777 schema:sameAs https://app.dimensions.ai/details/publication/pub.1004783500
240 rdf:type schema:CreativeWork
241 https://doi.org/10.1016/j.bbalip.2017.05.006 schema:sameAs https://app.dimensions.ai/details/publication/pub.1085408167
242 rdf:type schema:CreativeWork
243 https://doi.org/10.1016/j.chemphyslip.2013.05.005 schema:sameAs https://app.dimensions.ai/details/publication/pub.1008914870
244 rdf:type schema:CreativeWork
245 https://doi.org/10.1016/j.copbio.2016.08.001 schema:sameAs https://app.dimensions.ai/details/publication/pub.1032583435
246 rdf:type schema:CreativeWork
247 https://doi.org/10.1016/j.copbio.2018.01.008 schema:sameAs https://app.dimensions.ai/details/publication/pub.1100834353
248 rdf:type schema:CreativeWork
249 https://doi.org/10.1016/j.phytochem.2012.07.007 schema:sameAs https://app.dimensions.ai/details/publication/pub.1046243525
250 rdf:type schema:CreativeWork
251 https://doi.org/10.1021/ac302733c schema:sameAs https://app.dimensions.ai/details/publication/pub.1055003552
252 rdf:type schema:CreativeWork
253 https://doi.org/10.1021/ac9011599 schema:sameAs https://app.dimensions.ai/details/publication/pub.1055071428
254 rdf:type schema:CreativeWork
255 https://doi.org/10.1021/acs.analchem.6b00770 schema:sameAs https://app.dimensions.ai/details/publication/pub.1055079758
256 rdf:type schema:CreativeWork
257 https://doi.org/10.1021/acs.analchem.6b00906 schema:sameAs https://app.dimensions.ai/details/publication/pub.1055079798
258 rdf:type schema:CreativeWork
259 https://doi.org/10.1021/acs.analchem.7b02380 schema:sameAs https://app.dimensions.ai/details/publication/pub.1091787762
260 rdf:type schema:CreativeWork
261 https://doi.org/10.1021/acs.analchem.7b02759 schema:sameAs https://app.dimensions.ai/details/publication/pub.1091933791
262 rdf:type schema:CreativeWork
263 https://doi.org/10.1021/acs.analchem.7b03929 schema:sameAs https://app.dimensions.ai/details/publication/pub.1092248438
264 rdf:type schema:CreativeWork
265 https://doi.org/10.1021/acs.analchem.7b04424 schema:sameAs https://app.dimensions.ai/details/publication/pub.1100722701
266 rdf:type schema:CreativeWork
267 https://doi.org/10.1021/acs.jmedchem.7b01178 schema:sameAs https://app.dimensions.ai/details/publication/pub.1100914208
268 rdf:type schema:CreativeWork
269 https://doi.org/10.1021/np50096a009 schema:sameAs https://app.dimensions.ai/details/publication/pub.1056236298
270 rdf:type schema:CreativeWork
271 https://doi.org/10.1021/pr800226w schema:sameAs https://app.dimensions.ai/details/publication/pub.1056294368
272 rdf:type schema:CreativeWork
273 https://doi.org/10.1073/pnas.0506580102 schema:sameAs https://app.dimensions.ai/details/publication/pub.1037705714
274 rdf:type schema:CreativeWork
275 https://doi.org/10.1093/jxb/err460 schema:sameAs https://app.dimensions.ai/details/publication/pub.1023111736
276 rdf:type schema:CreativeWork
277 https://doi.org/10.1093/jxb/erv176 schema:sameAs https://app.dimensions.ai/details/publication/pub.1026019261
278 rdf:type schema:CreativeWork
279 https://doi.org/10.1093/nar/gku886 schema:sameAs https://app.dimensions.ai/details/publication/pub.1019815317
280 rdf:type schema:CreativeWork
281 https://doi.org/10.1104/pp.15.00997 schema:sameAs https://app.dimensions.ai/details/publication/pub.1060841607
282 rdf:type schema:CreativeWork
283 https://doi.org/10.1105/tpc.113.122242 schema:sameAs https://app.dimensions.ai/details/publication/pub.1028223764
284 rdf:type schema:CreativeWork
285 https://doi.org/10.1111/j.1365-313x.2011.04682.x schema:sameAs https://app.dimensions.ai/details/publication/pub.1005783638
286 rdf:type schema:CreativeWork
287 https://doi.org/10.1111/pce.12595 schema:sameAs https://app.dimensions.ai/details/publication/pub.1044078708
288 rdf:type schema:CreativeWork
289 https://doi.org/10.3389/fpls.2016.01861 schema:sameAs https://app.dimensions.ai/details/publication/pub.1017045721
290 rdf:type schema:CreativeWork
291 https://doi.org/10.4155/bio.13.348 schema:sameAs https://app.dimensions.ai/details/publication/pub.1016442513
292 rdf:type schema:CreativeWork
293 https://www.grid.ac/institutes/grid.136304.3 schema:alternateName Chiba University
294 schema:name Graduate School of Pharmaceutical Sciences, Chiba University, Chiba, Japan
295 RIKEN Center for Sustainable Resource Science, Yokohama, Japan
296 rdf:type schema:Organization
297 https://www.grid.ac/institutes/grid.288127.6 schema:alternateName National Institute of Genetics
298 schema:name National Institute of Genetics, Mishima, Japan
299 RIKEN Center for Sustainable Resource Science, Yokohama, Japan
300 rdf:type schema:Organization
301 https://www.grid.ac/institutes/grid.4818.5 schema:alternateName Wageningen University & Research
302 schema:name Laboratory of Genetics, Wageningen University & Research, Wageningen, the Netherlands
303 rdf:type schema:Organization
304 https://www.grid.ac/institutes/grid.7597.c schema:alternateName RIKEN
305 schema:name RIKEN Center for Integrative Medical Sciences, Yokohama, Japan
306 RIKEN Center for Sustainable Resource Science, Yokohama, Japan
307 rdf:type schema:Organization
 




Preview window. Press ESC to close (or click here)


...