Ontology type: schema:ScholarlyArticle Open Access: True
2021-09-14
AUTHORSKen H. Liu, Choon M. Lee, Grant Singer, Preeti Bais, Francisco Castellanos, Michael H. Woodworth, Thomas R. Ziegler, Colleen S. Kraft, Gary W. Miller, Shuzhao Li, Young-Mi Go, Edward T. Morgan, Dean P. Jones
ABSTRACTAdvances in genomics have revealed many of the genetic underpinnings of human disease, but exposomics methods are currently inadequate to obtain a similar level of understanding of environmental contributions to human disease. Exposomics methods are limited by low abundance of xenobiotic metabolites and lack of authentic standards, which precludes identification using solely mass spectrometry-based criteria. Here, we develop and validate a method for enzymatic generation of xenobiotic metabolites for use with high-resolution mass spectrometry (HRMS) for chemical identification. Generated xenobiotic metabolites were used to confirm identities of respective metabolites in mice and human samples based upon accurate mass, retention time and co-occurrence with related xenobiotic metabolites. The results establish a generally applicable enzyme-based identification (EBI) for mass spectrometry identification of xenobiotic metabolites and could complement existing criteria for chemical identification. More... »
PAGES5418
http://scigraph.springernature.com/pub.10.1038/s41467-021-25698-x
DOIhttp://dx.doi.org/10.1038/s41467-021-25698-x
DIMENSIONShttps://app.dimensions.ai/details/publication/pub.1141108295
PUBMEDhttps://www.ncbi.nlm.nih.gov/pubmed/34521839
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/2008/03",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Chemical Sciences",
"type": "DefinedTerm"
},
{
"id": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/0301",
"inDefinedTermSet": "http://purl.org/au-research/vocabulary/anzsrc-for/2008/",
"name": "Analytical Chemistry",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Animals",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Cytochrome P-450 Enzyme System",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Gene Expression",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Humans",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Isoenzymes",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Isotope Labeling",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Liver",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Mass Spectrometry",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Metabolic Detoxication, Phase I",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Metabolic Detoxication, Phase II",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Mice",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Microsomes, Liver",
"type": "DefinedTerm"
},
{
"inDefinedTermSet": "https://www.nlm.nih.gov/mesh/",
"name": "Xenobiotics",
"type": "DefinedTerm"
}
],
"author": [
{
"affiliation": {
"alternateName": "Clinical Biomarkers Laboratory, Department of Medicine, Emory University, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Clinical Biomarkers Laboratory, Department of Medicine, Emory University, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Liu",
"givenName": "Ken H.",
"id": "sg:person.01322232421.33",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01322232421.33"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Department of Pharmacology and Chemical Biology, Emory University School of Medicine, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Department of Pharmacology and Chemical Biology, Emory University School of Medicine, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Lee",
"givenName": "Choon M.",
"id": "sg:person.01072735156.06",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01072735156.06"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Department of Pharmacology and Chemical Biology, Emory University School of Medicine, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Department of Pharmacology and Chemical Biology, Emory University School of Medicine, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Singer",
"givenName": "Grant",
"id": "sg:person.010200074761.51",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010200074761.51"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "The Jackson Laboratory for Genomic Medicine, Atlanta, Connecticut, USA",
"id": "http://www.grid.ac/institutes/None",
"name": [
"The Jackson Laboratory for Genomic Medicine, Atlanta, Connecticut, USA"
],
"type": "Organization"
},
"familyName": "Bais",
"givenName": "Preeti",
"id": "sg:person.0711217427.80",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0711217427.80"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "The Jackson Laboratory for Genomic Medicine, Atlanta, Connecticut, USA",
"id": "http://www.grid.ac/institutes/None",
"name": [
"The Jackson Laboratory for Genomic Medicine, Atlanta, Connecticut, USA"
],
"type": "Organization"
},
"familyName": "Castellanos",
"givenName": "Francisco",
"type": "Person"
},
{
"affiliation": {
"alternateName": "Division of Infectious Disease, Department of Medicine, Emory University School of Medicine, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Division of Infectious Disease, Department of Medicine, Emory University School of Medicine, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Woodworth",
"givenName": "Michael H.",
"id": "sg:person.010004115273.40",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010004115273.40"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Division of Endocrinology, Metabolism and Lipids, Department of Medicine, Emory University School of Medicine, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Division of Endocrinology, Metabolism and Lipids, Department of Medicine, Emory University School of Medicine, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Ziegler",
"givenName": "Thomas R.",
"id": "sg:person.0716724534.81",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0716724534.81"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Emory University School of Medicine, Department of Pathology and Laboratory Medicine, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Division of Infectious Disease, Department of Medicine, Emory University School of Medicine, Atlanta, Georgia, USA",
"Emory University School of Medicine, Department of Pathology and Laboratory Medicine, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Kraft",
"givenName": "Colleen S.",
"id": "sg:person.01301634513.33",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01301634513.33"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Department of Environmental Health Sciences, Columbia University Mailman School of Public Health, New York, New York, USA",
"id": "http://www.grid.ac/institutes/grid.21729.3f",
"name": [
"Department of Environmental Health Sciences, Columbia University Mailman School of Public Health, New York, New York, USA"
],
"type": "Organization"
},
"familyName": "Miller",
"givenName": "Gary W.",
"id": "sg:person.0672124000.31",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.0672124000.31"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "The Jackson Laboratory for Genomic Medicine, Atlanta, Connecticut, USA",
"id": "http://www.grid.ac/institutes/None",
"name": [
"The Jackson Laboratory for Genomic Medicine, Atlanta, Connecticut, USA"
],
"type": "Organization"
},
"familyName": "Li",
"givenName": "Shuzhao",
"id": "sg:person.01053123615.52",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01053123615.52"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Clinical Biomarkers Laboratory, Department of Medicine, Emory University, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Clinical Biomarkers Laboratory, Department of Medicine, Emory University, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Go",
"givenName": "Young-Mi",
"id": "sg:person.01254366746.16",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.01254366746.16"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Department of Pharmacology and Chemical Biology, Emory University School of Medicine, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Department of Pharmacology and Chemical Biology, Emory University School of Medicine, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Morgan",
"givenName": "Edward T.",
"id": "sg:person.013071503752.27",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.013071503752.27"
],
"type": "Person"
},
{
"affiliation": {
"alternateName": "Clinical Biomarkers Laboratory, Department of Medicine, Emory University, Atlanta, Georgia, USA",
"id": "http://www.grid.ac/institutes/grid.189967.8",
"name": [
"Clinical Biomarkers Laboratory, Department of Medicine, Emory University, Atlanta, Georgia, USA"
],
"type": "Organization"
},
"familyName": "Jones",
"givenName": "Dean P.",
"id": "sg:person.010463621557.31",
"sameAs": [
"https://app.dimensions.ai/discover/publication?and_facet_researcher=ur.010463621557.31"
],
"type": "Person"
}
],
"citation": [
{
"id": "sg:pub.10.1186/s13321-016-0115-9",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1050554722",
"https://doi.org/10.1186/s13321-016-0115-9"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1007/s11095-008-9535-1",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1027494404",
"https://doi.org/10.1007/s11095-008-9535-1"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1471-2105-14-15",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1034491286",
"https://doi.org/10.1186/1471-2105-14-15"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/1471-2105-11-395",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1044581026",
"https://doi.org/10.1186/1471-2105-11-395"
],
"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.10.1186/1471-2105-7-234",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1045172077",
"https://doi.org/10.1186/1471-2105-7-234"
],
"type": "CreativeWork"
},
{
"id": "sg:pub.10.1186/s13321-018-0324-5",
"sameAs": [
"https://app.dimensions.ai/details/publication/pub.1111159678",
"https://doi.org/10.1186/s13321-018-0324-5"
],
"type": "CreativeWork"
}
],
"datePublished": "2021-09-14",
"datePublishedReg": "2021-09-14",
"description": "Advances in genomics have revealed many of the genetic underpinnings of human disease, but exposomics methods are currently inadequate to obtain a similar level of understanding of environmental contributions to human disease. Exposomics methods are limited by low abundance of xenobiotic metabolites and lack of authentic standards, which precludes identification using solely mass spectrometry-based criteria. Here, we develop and validate a method for enzymatic generation of xenobiotic metabolites for use with high-resolution mass spectrometry (HRMS) for chemical identification. Generated xenobiotic metabolites were used to confirm identities of respective metabolites in mice and human samples based upon accurate mass, retention time and co-occurrence with related xenobiotic metabolites. The results establish a generally applicable enzyme-based identification (EBI) for mass spectrometry identification of xenobiotic metabolites and could complement existing criteria for chemical identification.",
"genre": "article",
"id": "sg:pub.10.1038/s41467-021-25698-x",
"inLanguage": "en",
"isAccessibleForFree": true,
"isFundedItemOf": [
{
"id": "sg:grant.7072326",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.7754196",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.3625116",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.7753866",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.9535887",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.2705346",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.8388444",
"type": "MonetaryGrant"
},
{
"id": "sg:grant.2439113",
"type": "MonetaryGrant"
}
],
"isPartOf": [
{
"id": "sg:journal.1043282",
"issn": [
"2041-1723"
],
"name": "Nature Communications",
"publisher": "Springer Nature",
"type": "Periodical"
},
{
"issueNumber": "1",
"type": "PublicationIssue"
},
{
"type": "PublicationVolume",
"volumeNumber": "12"
}
],
"keywords": [
"high-resolution mass spectrometry",
"chemical identification",
"xenobiotic metabolites",
"mass spectrometry identification",
"accurate mass",
"mass spectrometry",
"authentic standards",
"enzymatic generation",
"retention time",
"respective metabolites",
"spectrometry",
"metabolites",
"exposomics",
"low abundance",
"method",
"enzyme",
"human samples",
"human diseases",
"identification",
"samples",
"advances",
"generation",
"contribution",
"time",
"use",
"mass",
"results",
"abundance",
"understanding",
"standards",
"levels",
"genetic underpinnings",
"similar levels",
"genomics",
"lack",
"environmental contributions",
"identity",
"disease",
"mice",
"criteria",
"underpinnings"
],
"name": "Large scale enzyme based xenobiotic identification for exposomics",
"pagination": "5418",
"productId": [
{
"name": "dimensions_id",
"type": "PropertyValue",
"value": [
"pub.1141108295"
]
},
{
"name": "doi",
"type": "PropertyValue",
"value": [
"10.1038/s41467-021-25698-x"
]
},
{
"name": "pubmed_id",
"type": "PropertyValue",
"value": [
"34521839"
]
}
],
"sameAs": [
"https://doi.org/10.1038/s41467-021-25698-x",
"https://app.dimensions.ai/details/publication/pub.1141108295"
],
"sdDataset": "articles",
"sdDatePublished": "2022-05-20T07:38",
"sdLicense": "https://scigraph.springernature.com/explorer/license/",
"sdPublisher": {
"name": "Springer Nature - SN SciGraph project",
"type": "Organization"
},
"sdSource": "s3://com-springernature-scigraph/baseset/20220519/entities/gbq_results/article/article_883.jsonl",
"type": "ScholarlyArticle",
"url": "https://doi.org/10.1038/s41467-021-25698-x"
}
]
Download the RDF metadata as: json-ld nt turtle xml License info
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/s41467-021-25698-x'
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/s41467-021-25698-x'
Turtle is a human-readable linked data format.
curl -H 'Accept: text/turtle' 'https://scigraph.springernature.com/pub.10.1038/s41467-021-25698-x'
RDF/XML is a standard XML format for linked data.
curl -H 'Accept: application/rdf+xml' 'https://scigraph.springernature.com/pub.10.1038/s41467-021-25698-x'
This table displays all metadata directly associated to this object as RDF triples.
295 TRIPLES
22 PREDICATES
87 URIs
72 LITERALS
20 BLANK NODES