{"id":"https://openalex.org/W2030776070","doi":"https://doi.org/10.1186/1752-0509-3-37","title":"Connecting extracellular metabolomic measurements to intracellular flux states in yeast","display_name":"Connecting extracellular metabolomic measurements to intracellular flux states in yeast","publication_year":2009,"publication_date":"2009-03-25","ids":{"openalex":"https://openalex.org/W2030776070","doi":"https://doi.org/10.1186/1752-0509-3-37","mag":"2030776070","pmid":"https://pubmed.ncbi.nlm.nih.gov/19321003"},"language":"en","primary_location":{"id":"doi:10.1186/1752-0509-3-37","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-3-37","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-3-37","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-3-37","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5022843136","display_name":"Monica L. Mo","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Monica L Mo","raw_affiliation_strings":["Department of Bioengineering, University of California-San Diego, La Jolla, CA 92093, USA","Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California-San Diego, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051097609","display_name":"Bernhard \u00d8. Palsson","orcid":"https://orcid.org/0000-0003-2357-6785"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bernhard \u00d8 Palsson","raw_affiliation_strings":["Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015184122","display_name":"Markus J. Herrg\u00e5rd","orcid":"https://orcid.org/0000-0003-2377-9929"},"institutions":[{"id":"https://openalex.org/I4210133505","display_name":"Synthetic Genomics (United States)","ror":"https://ror.org/03mz6dw96","country_code":"US","type":"company","lineage":["https://openalex.org/I4210133505"]},{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Markus J Herrg\u00e5rd","raw_affiliation_strings":["Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA","Synthetic Genomics, Inc, 11149 N Torrey Pines Rd, La Jolla, CA, 92037, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California, San Diego, La Jolla, CA, 92093, USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Synthetic Genomics, Inc, 11149 N Torrey Pines Rd, La Jolla, CA, 92037, USA","institution_ids":["https://openalex.org/I4210133505"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5015184122"],"corresponding_institution_ids":["https://openalex.org/I36258959","https://openalex.org/I4210133505"],"apc_list":null,"apc_paid":null,"fwci":11.7566,"has_fulltext":true,"cited_by_count":469,"citation_normalized_percentile":{"value":0.99115951,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"3","issue":"1","first_page":"37","last_page":"37"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.801800012588501,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.801800012588501,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.1290999948978424,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.024000000208616257,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/metabolome","display_name":"Metabolome","score":0.9139046669006348},{"id":"https://openalex.org/keywords/metabolomics","display_name":"Metabolomics","score":0.8366037011146545},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.665623664855957},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.6582222580909729},{"id":"https://openalex.org/keywords/extracellular","display_name":"Extracellular","score":0.6512547731399536},{"id":"https://openalex.org/keywords/intracellular","display_name":"Intracellular","score":0.6181604862213135},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6047479510307312},{"id":"https://openalex.org/keywords/metabolic-flux-analysis","display_name":"Metabolic flux analysis","score":0.5978617072105408},{"id":"https://openalex.org/keywords/flux","display_name":"Flux (metallurgy)","score":0.5891546010971069},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5374349355697632},{"id":"https://openalex.org/keywords/flux-balance-analysis","display_name":"Flux balance analysis","score":0.4709530770778656},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46644824743270874},{"id":"https://openalex.org/keywords/metabolic-engineering","display_name":"Metabolic engineering","score":0.41998523473739624},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.24735429883003235},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23816201090812683},{"id":"https://openalex.org/keywords/metabolism","display_name":"Metabolism","score":0.22710439562797546},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.22480210661888123},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.22285914421081543},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2138212025165558},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20910507440567017}],"concepts":[{"id":"https://openalex.org/C135870905","wikidata":"https://www.wikidata.org/wiki/Q903667","display_name":"Metabolome","level":3,"score":0.9139046669006348},{"id":"https://openalex.org/C21565614","wikidata":"https://www.wikidata.org/wiki/Q12149006","display_name":"Metabolomics","level":2,"score":0.8366037011146545},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.665623664855957},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.6582222580909729},{"id":"https://openalex.org/C28406088","wikidata":"https://www.wikidata.org/wiki/Q5571762","display_name":"Extracellular","level":2,"score":0.6512547731399536},{"id":"https://openalex.org/C79879829","wikidata":"https://www.wikidata.org/wiki/Q5571762","display_name":"Intracellular","level":2,"score":0.6181604862213135},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6047479510307312},{"id":"https://openalex.org/C160941953","wikidata":"https://www.wikidata.org/wiki/Q6822342","display_name":"Metabolic flux analysis","level":3,"score":0.5978617072105408},{"id":"https://openalex.org/C68709404","wikidata":"https://www.wikidata.org/wiki/Q1134475","display_name":"Flux (metallurgy)","level":2,"score":0.5891546010971069},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5374349355697632},{"id":"https://openalex.org/C167091322","wikidata":"https://www.wikidata.org/wiki/Q5463029","display_name":"Flux balance analysis","level":2,"score":0.4709530770778656},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46644824743270874},{"id":"https://openalex.org/C6350086","wikidata":"https://www.wikidata.org/wiki/Q6822347","display_name":"Metabolic engineering","level":3,"score":0.41998523473739624},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.24735429883003235},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23816201090812683},{"id":"https://openalex.org/C62231903","wikidata":"https://www.wikidata.org/wiki/Q1057","display_name":"Metabolism","level":2,"score":0.22710439562797546},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.22480210661888123},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.22285914421081543},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2138212025165558},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20910507440567017},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000644","descriptor_name":"Quaternary Ammonium Compounds","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000644","descriptor_name":"Quaternary Ammonium Compounds","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D000644","descriptor_name":"Quaternary Ammonium Compounds","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D005110","descriptor_name":"Extracellular Space","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005110","descriptor_name":"Extracellular Space","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005110","descriptor_name":"Extracellular Space","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005800","descriptor_name":"Genes, Fungal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005969","descriptor_name":"Glutamate Dehydrogenase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005969","descriptor_name":"Glutamate Dehydrogenase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D005969","descriptor_name":"Glutamate Dehydrogenase","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011188","descriptor_name":"Potassium","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D011188","descriptor_name":"Potassium","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D011188","descriptor_name":"Potassium","qualifier_ui":"Q000494","qualifier_name":"pharmacology","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000166","qualifier_name":"cytology","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000187","qualifier_name":"drug effects","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017353","descriptor_name":"Gene Deletion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017353","descriptor_name":"Gene Deletion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017353","descriptor_name":"Gene Deletion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D042541","descriptor_name":"Intracellular Space","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D042541","descriptor_name":"Intracellular Space","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D042541","descriptor_name":"Intracellular Space","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055432","descriptor_name":"Metabolomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1186/1752-0509-3-37","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-3-37","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-3-37","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},{"id":"pmid:19321003","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19321003","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC systems biology","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2679711","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2679711","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Syst Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1752-0509-3-37","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-3-37","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-3-37","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2030776070.pdf","grobid_xml":"https://content.openalex.org/works/W2030776070.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W1797956629","https://openalex.org/W1985923835","https://openalex.org/W1996529795","https://openalex.org/W1996791690","https://openalex.org/W1997491276","https://openalex.org/W2000734440","https://openalex.org/W2003489966","https://openalex.org/W2009990638","https://openalex.org/W2013309732","https://openalex.org/W2015519162","https://openalex.org/W2018082119","https://openalex.org/W2019516978","https://openalex.org/W2023825654","https://openalex.org/W2025663053","https://openalex.org/W2028561804","https://openalex.org/W2030028650","https://openalex.org/W2032558783","https://openalex.org/W2037718952","https://openalex.org/W2041540026","https://openalex.org/W2046151962","https://openalex.org/W2047632644","https://openalex.org/W2048214825","https://openalex.org/W2049648489","https://openalex.org/W2054719673","https://openalex.org/W2056281205","https://openalex.org/W2062245653","https://openalex.org/W2068065441","https://openalex.org/W2072013780","https://openalex.org/W2073612090","https://openalex.org/W2074280444","https://openalex.org/W2080959004","https://openalex.org/W2086196945","https://openalex.org/W2089476104","https://openalex.org/W2095975432","https://openalex.org/W2096245011","https://openalex.org/W2097333015","https://openalex.org/W2097588479","https://openalex.org/W2099925531","https://openalex.org/W2102164505","https://openalex.org/W2104108767","https://openalex.org/W2104854233","https://openalex.org/W2107432340","https://openalex.org/W2107459209","https://openalex.org/W2111421616","https://openalex.org/W2114390083","https://openalex.org/W2115010568","https://openalex.org/W2128572161","https://openalex.org/W2147472054","https://openalex.org/W2153373497","https://openalex.org/W2156663873","https://openalex.org/W2159675211","https://openalex.org/W2162471251","https://openalex.org/W2163823651","https://openalex.org/W2165762336","https://openalex.org/W2170427655","https://openalex.org/W2171968158","https://openalex.org/W4238101851"],"related_works":["https://openalex.org/W2046546139","https://openalex.org/W1992844569","https://openalex.org/W1999460937","https://openalex.org/W1918238777","https://openalex.org/W2113329733","https://openalex.org/W4285237197","https://openalex.org/W2341681417","https://openalex.org/W1984242440","https://openalex.org/W2613838074","https://openalex.org/W2133150343"],"abstract_inverted_index":{"BACKGROUND:":[0],"Metabolomics":[1],"has":[2],"emerged":[3],"as":[4],"a":[5,36,143,206],"powerful":[6],"tool":[7],"in":[8,24,35,56,67,100,116,134,205,212],"the":[9,57,131,135,186,189],"quantitative":[10,201],"identification":[11],"of":[12,31,48,123,137,174,188],"physiological":[13,33,231],"and":[14,84,88,120,142,171,232],"disease-induced":[15],"biological":[16],"states.":[17,70,216,234],"Extracellular":[18,112],"metabolome":[19,59,113,226],"or":[20],"metabolic":[21,45,69,73,190,214],"profiling":[22],"data,":[23],"particular,":[25],"can":[26,60],"provide":[27],"an":[28,42,79],"insightful":[29],"view":[30],"intracellular":[32,68,159,168,176,213],"states":[34],"noninvasive":[37],"manner.":[38],"RESULTS:":[39],"We":[40],"used":[41,62,148,182],"updated":[43],"genome-scale":[44,81],"network":[46,74,92,133,191],"model":[47,93],"Saccharomyces":[49],"cerevisiae,":[50],"iMM904,":[51],"to":[52,63,108,118,149,183,229],"investigate":[53],"how":[54],"changes":[55,66,161,178,211],"extracellular":[58,202],"be":[61,181,221],"study":[64],"systemic":[65],"The":[71,91],"iMM904":[72,132],"was":[75,94,127,147],"reconstructed":[76],"based":[77],"on":[78,167],"existing":[80],"network,":[82],"iND750,":[83],"includes":[85],"904":[86],"genes":[87],"1,412":[89],"reactions.":[90],"first":[95],"validated":[96],"by":[97,155],"comparing":[98],"2,888":[99],"silico":[101],"single-gene":[102],"deletion":[103],"strain":[104],"growth":[105],"phenotype":[106],"predictions":[107],"published":[109,165],"experimental":[110],"data.":[111],"data":[114],"measured":[115],"response":[117],"environmental":[119],"genetic":[121],"perturbations":[122],"ammonium":[124],"assimilation":[125],"pathways":[126],"then":[128],"integrated":[129],"with":[130,164],"form":[136],"relative":[138],"overflow":[139],"secretion":[140],"constraints":[141],"flux":[144,152,160,177,215],"sampling":[145],"approach":[146],"characterize":[150],"candidate":[151],"distributions":[153],"allowed":[154],"these":[156],"constraints.":[157],"Predicted":[158],"were":[162,193],"consistent":[163],"measurements":[166],"metabolite":[169],"levels":[170],"fluxes.":[172],"Patterns":[173],"predicted":[175],"could":[179,219],"also":[180],"correctly":[184],"identify":[185],"regions":[187],"that":[192,199],"perturbed.":[194],"CONCLUSION:":[195],"Our":[196],"results":[197],"indicate":[198],"integrating":[200],"metabolomic":[203],"profiles":[204],"constraint-based":[207],"framework":[208],"enables":[209],"inferring":[210],"Similar":[217],"methods":[218],"potentially":[220],"applied":[222],"towards":[223],"analyzing":[224],"biofluid":[225],"variations":[227],"related":[228],"human":[230],"disease":[233]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":19},{"year":2024,"cited_by_count":21},{"year":2023,"cited_by_count":28},{"year":2022,"cited_by_count":18},{"year":2021,"cited_by_count":26},{"year":2020,"cited_by_count":29},{"year":2019,"cited_by_count":31},{"year":2018,"cited_by_count":22},{"year":2017,"cited_by_count":39},{"year":2016,"cited_by_count":33},{"year":2015,"cited_by_count":38},{"year":2014,"cited_by_count":32},{"year":2013,"cited_by_count":42},{"year":2012,"cited_by_count":43}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
