{"id":"https://openalex.org/W3014189804","doi":"https://doi.org/10.1186/s12859-020-3415-z","title":"Visualizing metabolic network dynamics through time-series metabolomic data","display_name":"Visualizing metabolic network dynamics through time-series metabolomic data","publication_year":2020,"publication_date":"2020-04-03","ids":{"openalex":"https://openalex.org/W3014189804","doi":"https://doi.org/10.1186/s12859-020-3415-z","mag":"3014189804","pmid":"https://pubmed.ncbi.nlm.nih.gov/32245365"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-3415-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3415-z","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-3415-z.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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 Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-3415-z.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5050251280","display_name":"Lea F. Buchweitz","orcid":"https://orcid.org/0000-0002-2189-9751"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Lea F. Buchweitz","raw_affiliation_strings":["Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Biomedical Informatics (IBMI), Sand 14, T\u00fcbingen, 72076, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Biomedical Informatics (IBMI), Sand 14, T\u00fcbingen, 72076, Germany","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082126398","display_name":"James T. Yurkovich","orcid":"https://orcid.org/0000-0002-9403-509X"},"institutions":[{"id":"https://openalex.org/I3148997608","display_name":"Institute for Systems Biology","ror":"https://ror.org/02tpgw303","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I3148997608"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James T. Yurkovich","raw_affiliation_strings":["Institute for Systems Biology, 401 Terry Ave. N., Seattle, 98109, WA, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Systems Biology, 401 Terry Ave. N., Seattle, 98109, WA, United States","institution_ids":["https://openalex.org/I3148997608"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041144137","display_name":"Christoph Blessing","orcid":"https://orcid.org/0000-0002-2955-1426"},"institutions":[{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Christoph Blessing","raw_affiliation_strings":["Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Biomedical Informatics (IBMI), Sand 14, T\u00fcbingen, 72076, Germany","Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Biomedical Informatics (IBMI), Sand 14, T\u00fcbingen, 72076, Germany","institution_ids":[]},{"raw_affiliation_string":"Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany","institution_ids":["https://openalex.org/I8087733"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016497478","display_name":"Veronika Kohler","orcid":null},"institutions":[{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Veronika Kohler","raw_affiliation_strings":["Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Biomedical Informatics (IBMI), Sand 14, T\u00fcbingen, 72076, Germany","Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Biomedical Informatics (IBMI), Sand 14, T\u00fcbingen, 72076, Germany","institution_ids":[]},{"raw_affiliation_string":"Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany","institution_ids":["https://openalex.org/I8087733"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027894771","display_name":"Fabian Schwarzkopf","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Fabian Schwarzkopf","raw_affiliation_strings":["yWorks GmbH, Vor dem Kreuzberg 28, T\u00fcbingen, 72070, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"yWorks GmbH, Vor dem Kreuzberg 28, T\u00fcbingen, 72070, Germany","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075454403","display_name":"Zachary A. King","orcid":"https://orcid.org/0000-0003-1238-1499"},"institutions":[{"id":"https://openalex.org/I2801134892","display_name":"Novo Nordisk Foundation","ror":"https://ror.org/04txyc737","country_code":"DK","type":"facility","lineage":["https://openalex.org/I2801134892"]},{"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"]},{"id":"https://openalex.org/I4210149061","display_name":"Novo Nordisk (Germany)","ror":"https://ror.org/03nyzw632","country_code":"DE","type":"company","lineage":["https://openalex.org/I189090001","https://openalex.org/I2801134892","https://openalex.org/I4210149061","https://openalex.org/I4210159963"]}],"countries":["DE","DK","US"],"is_corresponding":false,"raw_author_name":"Zachary A. King","raw_affiliation_strings":["Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Building 220, Kemitorvet, Kgs.Lyngby, 2800, Denmark","Systems Biology Research Group, Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412, United States"],"raw_orcid":"https://orcid.org/0000-0003-1238-1499","affiliations":[{"raw_affiliation_string":"Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Building 220, Kemitorvet, Kgs.Lyngby, 2800, Denmark","institution_ids":["https://openalex.org/I2801134892","https://openalex.org/I4210149061"]},{"raw_affiliation_string":"Systems Biology Research Group, Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412, United States","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080751595","display_name":"Laurence Yang","orcid":"https://orcid.org/0000-0001-6663-7643"},"institutions":[{"id":"https://openalex.org/I204722609","display_name":"Queen's University","ror":"https://ror.org/02y72wh86","country_code":"CA","type":"education","lineage":["https://openalex.org/I204722609"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Laurence Yang","raw_affiliation_strings":["Department of Chemical Engineering, Queen's University, Kingston, ON K7L 3N6, Canada"],"raw_orcid":"https://orcid.org/0000-0001-6663-7643","affiliations":[{"raw_affiliation_string":"Department of Chemical Engineering, Queen's University, Kingston, ON K7L 3N6, Canada","institution_ids":["https://openalex.org/I204722609"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049739483","display_name":"Freyr J\u00f3hannsson","orcid":"https://orcid.org/0000-0001-6460-2463"},"institutions":[{"id":"https://openalex.org/I165368041","display_name":"University of Iceland","ror":"https://ror.org/01db6h964","country_code":"IS","type":"education","lineage":["https://openalex.org/I165368041"]}],"countries":["IS"],"is_corresponding":false,"raw_author_name":"Freyr J\u00f3hannsson","raw_affiliation_strings":["Center for Systems Biology, University of Iceland, Sturlugata 8, Reykjav\u00edk, 101, Iceland"],"raw_orcid":"https://orcid.org/0000-0001-6460-2463","affiliations":[{"raw_affiliation_string":"Center for Systems Biology, University of Iceland, Sturlugata 8, Reykjav\u00edk, 101, Iceland","institution_ids":["https://openalex.org/I165368041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021035939","display_name":"\u00d3lafur E. Sigurj\u00f3nsson","orcid":"https://orcid.org/0000-0002-4968-842X"},"institutions":[{"id":"https://openalex.org/I123185442","display_name":"Reykjav\u00edk University","ror":"https://ror.org/05d2kyx68","country_code":"IS","type":"education","lineage":["https://openalex.org/I123185442"]},{"id":"https://openalex.org/I4210106610","display_name":"National University Hospital of Iceland","ror":"https://ror.org/011k7k191","country_code":"IS","type":"funder","lineage":["https://openalex.org/I4210106610"]}],"countries":["IS"],"is_corresponding":false,"raw_author_name":"\u00d3lafur E. Sigurj\u00f3nsson","raw_affiliation_strings":["School of Science and Engineering, Reykjav\u00edk University, Menntavegi 1, Reykjav\u00edk, 101, Iceland","The Blood Bank, Landsp\u00edtali-University Hospital, Reykjav\u00edk, 101, Iceland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Science and Engineering, Reykjav\u00edk University, Menntavegi 1, Reykjav\u00edk, 101, Iceland","institution_ids":["https://openalex.org/I123185442"]},{"raw_affiliation_string":"The Blood Bank, Landsp\u00edtali-University Hospital, Reykjav\u00edk, 101, Iceland","institution_ids":["https://openalex.org/I123185442","https://openalex.org/I4210106610"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005541682","display_name":"\u00d3ttar Rolfsson","orcid":"https://orcid.org/0000-0003-4258-6057"},"institutions":[{"id":"https://openalex.org/I165368041","display_name":"University of Iceland","ror":"https://ror.org/01db6h964","country_code":"IS","type":"education","lineage":["https://openalex.org/I165368041"]}],"countries":["IS"],"is_corresponding":false,"raw_author_name":"\u00d3ttar Rolfsson","raw_affiliation_strings":["Center for Systems Biology, University of Iceland, Sturlugata 8, Reykjav\u00edk, 101, Iceland"],"raw_orcid":"https://orcid.org/0000-0003-4258-6057","affiliations":[{"raw_affiliation_string":"Center for Systems Biology, University of Iceland, Sturlugata 8, Reykjav\u00edk, 101, Iceland","institution_ids":["https://openalex.org/I165368041"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102872139","display_name":"Julian Heinrich","orcid":"https://orcid.org/0000-0002-5353-3914"},"institutions":[{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Julian Heinrich","raw_affiliation_strings":["Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany"],"raw_orcid":"https://orcid.org/0000-0002-5353-3914","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany","institution_ids":["https://openalex.org/I8087733"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065854572","display_name":"Andreas Dr\u00e4ger","orcid":"https://orcid.org/0000-0002-1240-5553"},"institutions":[{"id":"https://openalex.org/I4210115305","display_name":"German Center for Infection Research","ror":"https://ror.org/028s4q594","country_code":"DE","type":"facility","lineage":["https://openalex.org/I4210115305","https://openalex.org/I4405256427"]},{"id":"https://openalex.org/I8087733","display_name":"University of T\u00fcbingen","ror":"https://ror.org/03a1kwz48","country_code":"DE","type":"education","lineage":["https://openalex.org/I8087733"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Andreas Dr\u00e4ger","raw_affiliation_strings":["Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Biomedical Informatics (IBMI), Sand 14, T\u00fcbingen, 72076, Germany. draeger@informatik.uni-tuebingen.de","Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany. draeger@informatik.uni-tuebingen.de","German Center for Infection Research (DZIF), partner site T\u00fcbingen, T\u00fcbingen, 72076, Germany. draeger@informatik.uni-tuebingen.de","Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Biomedical Informatics (IBMI), Sand 14, T\u00fcbingen, 72076, Germany. draeger@informatik.uni-tuebingen.de","institution_ids":["https://openalex.org/I8087733"]},{"raw_affiliation_string":"Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany. draeger@informatik.uni-tuebingen.de","institution_ids":["https://openalex.org/I8087733"]},{"raw_affiliation_string":"German Center for Infection Research (DZIF), partner site T\u00fcbingen, T\u00fcbingen, 72076, Germany. draeger@informatik.uni-tuebingen.de","institution_ids":["https://openalex.org/I4210115305"]},{"raw_affiliation_string":"Department of Computer Science, University of T\u00fcbingen, Sand 14, T\u00fcbingen, 72076, Germany","institution_ids":["https://openalex.org/I8087733"]}]}],"institutions":[],"countries_distinct_count":5,"institutions_distinct_count":12,"corresponding_author_ids":["https://openalex.org/A5065854572"],"corresponding_institution_ids":["https://openalex.org/I4210115305","https://openalex.org/I8087733"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1608,"currency":"EUR","value_usd":1734},"fwci":1.5842,"has_fulltext":true,"cited_by_count":23,"citation_normalized_percentile":{"value":0.83051723,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"21","issue":"1","first_page":"130","last_page":"130"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.8416000008583069,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.8416000008583069,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.04639999940991402,"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/T10799","display_name":"Data Visualization and Analytics","score":0.008100000210106373,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.7509599924087524},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.659282386302948},{"id":"https://openalex.org/keywords/metabolomics","display_name":"Metabolomics","score":0.6516761779785156},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.647980272769928},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5928712487220764},{"id":"https://openalex.org/keywords/metabolome","display_name":"Metabolome","score":0.5120461583137512},{"id":"https://openalex.org/keywords/data-visualization","display_name":"Data visualization","score":0.5103186964988708},{"id":"https://openalex.org/keywords/big-data","display_name":"Big data","score":0.44365763664245605},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.416659414768219},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3545480966567993},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.32378631830215454},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.30523359775543213},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24266788363456726}],"concepts":[{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.7509599924087524},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.659282386302948},{"id":"https://openalex.org/C21565614","wikidata":"https://www.wikidata.org/wiki/Q12149006","display_name":"Metabolomics","level":2,"score":0.6516761779785156},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.647980272769928},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5928712487220764},{"id":"https://openalex.org/C135870905","wikidata":"https://www.wikidata.org/wiki/Q903667","display_name":"Metabolome","level":3,"score":0.5120461583137512},{"id":"https://openalex.org/C172367668","wikidata":"https://www.wikidata.org/wiki/Q6504956","display_name":"Data visualization","level":3,"score":0.5103186964988708},{"id":"https://openalex.org/C75684735","wikidata":"https://www.wikidata.org/wiki/Q858810","display_name":"Big data","level":2,"score":0.44365763664245605},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.416659414768219},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3545480966567993},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.32378631830215454},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.30523359775543213},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24266788363456726},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001792","descriptor_name":"Blood Platelets","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001792","descriptor_name":"Blood Platelets","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001792","descriptor_name":"Blood Platelets","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004912","descriptor_name":"Erythrocytes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004912","descriptor_name":"Erythrocytes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004912","descriptor_name":"Erythrocytes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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},{"descriptor_ui":"D055442","descriptor_name":"Metabolome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055442","descriptor_name":"Metabolome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055442","descriptor_name":"Metabolome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/s12859-020-3415-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3415-z","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-3415-z.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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 Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32245365","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32245365","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 bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:d6b35fc262944f6188fb91f69512f3df","is_oa":true,"landing_page_url":"https://doaj.org/article/d6b35fc262944f6188fb91f69512f3df","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-10 (2020)","raw_type":"article"},{"id":"pmh:oai:opinvisindi.is:20.500.11815/2385","is_oa":true,"landing_page_url":"https://hdl.handle.net/20.500.11815/2385","pdf_url":null,"source":{"id":"https://openalex.org/S4306401866","display_name":"Opin v\u00edsindi (Opin v\u00edsindi)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"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":"","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7119163","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7119163","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 Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:www.hirsla.lsh.is:2336/621389","is_oa":true,"landing_page_url":"http://hdl.handle.net/2336/621389","pdf_url":null,"source":{"id":"https://openalex.org/S4306401083","display_name":"Hirsla (Landsp\u00edtali University Hospital)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210106610","host_organization_name":"National University Hospital of Iceland","host_organization_lineage":["https://openalex.org/I4210106610"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC bioinformatics","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-3415-z","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3415-z","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-3415-z.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","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 Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2036822895","display_name":null,"funder_award_id":"EXC 2124","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G3490980126","display_name":null,"funder_award_id":"GM102098","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5417901379","display_name":null,"funder_award_id":"NNF10CC1016517","funder_id":"https://openalex.org/F4320322436","funder_display_name":"Novo Nordisk"},{"id":"https://openalex.org/G6160741424","display_name":null,"funder_award_id":"NNF10CC1016517","funder_id":"https://openalex.org/F4320323153","funder_display_name":"Danmarks Tekniske Universitet"},{"id":"https://openalex.org/G6553254277","display_name":null,"funder_award_id":"NNF10CC1016517","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7376865897","display_name":null,"funder_award_id":"R01-GM070923","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7686354716","display_name":null,"funder_award_id":"U01-GM102098","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7701966108","display_name":null,"funder_award_id":"NNF10CC1016517","funder_id":"https://openalex.org/F4320325957","funder_display_name":"Novo Nordisk Fonden"}],"funders":[{"id":"https://openalex.org/F4320309327","display_name":"Google","ror":"https://ror.org/00njsd438"},{"id":"https://openalex.org/F4320311052","display_name":"Deutsches Zentrum f\u00fcr Infektionsforschung","ror":"https://ror.org/028s4q594"},{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320321112","display_name":"Eberhard Karls Universit\u00e4t T\u00fcbingen","ror":"https://ror.org/03a1kwz48"},{"id":"https://openalex.org/F4320322367","display_name":"Landsp\u00edtali H\u00e1sk\u00f3lasj\u00fakrah\u00fas","ror":"https://ror.org/011k7k191"},{"id":"https://openalex.org/F4320322436","display_name":"Novo Nordisk","ror":"https://ror.org/0435rc536"},{"id":"https://openalex.org/F4320323153","display_name":"Danmarks Tekniske Universitet","ror":"https://ror.org/04qtj9h94"},{"id":"https://openalex.org/F4320323298","display_name":"H\u00e1sk\u00f3li \u00cdslands","ror":"https://ror.org/01db6h964"},{"id":"https://openalex.org/F4320325957","display_name":"Novo Nordisk Fonden","ror":"https://ror.org/04txyc737"},{"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/W3014189804.pdf","grobid_xml":"https://content.openalex.org/works/W3014189804.grobid-xml"},"referenced_works_count":51,"referenced_works":["https://openalex.org/W1596838762","https://openalex.org/W1665355332","https://openalex.org/W1783401755","https://openalex.org/W1971781829","https://openalex.org/W1997062226","https://openalex.org/W2023098599","https://openalex.org/W2030776070","https://openalex.org/W2038264484","https://openalex.org/W2040676413","https://openalex.org/W2041561818","https://openalex.org/W2045266982","https://openalex.org/W2058279507","https://openalex.org/W2067520432","https://openalex.org/W2068146784","https://openalex.org/W2068586234","https://openalex.org/W2069157810","https://openalex.org/W2076799601","https://openalex.org/W2096908543","https://openalex.org/W2101168835","https://openalex.org/W2117278695","https://openalex.org/W2125314007","https://openalex.org/W2130674027","https://openalex.org/W2138326194","https://openalex.org/W2145957155","https://openalex.org/W2147814423","https://openalex.org/W2153490111","https://openalex.org/W2154717205","https://openalex.org/W2155142785","https://openalex.org/W2159675211","https://openalex.org/W2185357718","https://openalex.org/W2194318288","https://openalex.org/W2202347610","https://openalex.org/W2411305692","https://openalex.org/W2466950654","https://openalex.org/W2497303707","https://openalex.org/W2589957161","https://openalex.org/W2594933406","https://openalex.org/W2596583406","https://openalex.org/W2602364388","https://openalex.org/W2604657987","https://openalex.org/W2761502649","https://openalex.org/W2763014033","https://openalex.org/W2766399257","https://openalex.org/W2767183729","https://openalex.org/W2789128799","https://openalex.org/W2791231307","https://openalex.org/W2794554641","https://openalex.org/W2916475656","https://openalex.org/W2950329335","https://openalex.org/W2962889697","https://openalex.org/W4237725837"],"related_works":["https://openalex.org/W1996644818","https://openalex.org/W1965468642","https://openalex.org/W2093500216","https://openalex.org/W2053588008","https://openalex.org/W2916376502","https://openalex.org/W3101161779","https://openalex.org/W423371831","https://openalex.org/W2777729175","https://openalex.org/W2260452057","https://openalex.org/W4295779760"],"abstract_inverted_index":{"BACKGROUND:":[0],"New":[1],"technologies":[2],"have":[3],"given":[4],"rise":[5],"to":[6,212,221,260,269,277,287],"an":[7,42],"abundance":[8],"of":[9,17,28,33,48,55,63,104,112,129,161,245,263],"-omics":[10,248],"data,":[11],"particularly":[12],"metabolomic":[13,50],"data.":[14],"The":[15,89,165,186,251],"scale":[16],"these":[18],"data":[19,51,71,216,249,273],"introduces":[20],"new":[21,98,119,187,243],"challenges":[22],"for":[23,45,72,83,97,145,199,242],"the":[24,31,46,53,61,64,101,109,113,118,147,157,162,228,240,279,294],"interpretation":[25],"and":[26,78,131,203,217,224,258,272,275],"extraction":[27],"knowledge,":[29],"requiring":[30],"development":[32],"innovative":[34],"computational":[35],"visualization":[36,47,120,188,223],"methodologies.":[37],"Here,":[38],"we":[39,233],"present":[40],"GEM-Vis,":[41],"original":[43],"method":[44,66,208],"time-course":[49],"within":[52],"context":[54],"metabolic":[56,102,219],"network":[57,201,229],"maps.":[58],"We":[59],"demonstrate":[60],"utility":[62],"GEM-Vis":[65,190],"by":[67],"examining":[68],"previously":[69],"published":[70],"two":[73,92],"cellular":[74],"systems-the":[75],"human":[76],"platelet":[77,114],"erythrocyte":[79,174],"under":[80],"cold":[81],"storage":[82,163,181],"use":[84,278],"in":[85,150,172,192,282,293],"transfusion":[86],"medicine.":[87],"RESULTS:":[88],"results":[90],"comprise":[91],"animated":[93],"videos":[94,265],"that":[95,126,128,235,266],"allow":[96],"insights":[99],"into":[100],"state":[103],"both":[105],"cell":[106],"types.":[107,250],"In":[108],"case":[110,167,295],"study":[111,168],"metabolome":[115],"during":[116,156,180],"storage,":[117],"technique":[121,189],"elucidates":[122],"a":[123,142,196,218,254,261],"nicotinamide":[124],"accumulation":[125],"mirrors":[127],"hypoxanthine":[130],"might,":[132],"therefore,":[133],"reflect":[134],"similar":[135,289],"pathway":[136],"usage.":[137],"This":[138,207],"visual":[139],"analysis":[140],"provides":[141],"possible":[143],"explanation":[144],"why":[146],"salvage":[148],"reactions":[149],"purine":[151],"metabolism":[152],"exhibit":[153],"lower":[154],"activity":[155],"first":[158],"few":[159],"days":[160],"period.":[164],"second":[166],"displays":[169],"drastic":[170],"changes":[171],"specific":[173],"metabolite":[175],"pools":[176],"at":[177,182,227],"different":[178,183],"times":[179],"temperatures.":[184],"CONCLUSIONS:":[185],"introduced":[191],"this":[193],"article":[194],"constitutes":[195],"well-suitable":[197],"approach":[198,237],"large-scale":[200],"exploration":[202],"advances":[204],"hypothesis":[205],"generation.":[206],"can":[209],"be":[210],"applied":[211],"any":[213],"system":[214],"with":[215,284],"map":[220],"promote":[222],"understand":[225],"physiology":[226],"level.":[230],"More":[231],"broadly,":[232],"hope":[234],"our":[236],"will":[238],"provide":[239],"blueprints":[241],"visualizations":[244],"other":[246],"longitudinal":[247],"supplement":[252],"includes":[253],"comprehensive":[255],"user's":[256],"guide":[257],"links":[259],"series":[262],"tutorial":[264],"explain":[267],"how":[268,276],"prepare":[270],"model":[271],"files,":[274],"software":[280],"SBMLsimulator":[281],"combination":[283],"further":[285],"tools":[286],"create":[288],"animations":[290],"as":[291],"highlighted":[292],"studies.":[296]},"counts_by_year":[{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":9},{"year":2020,"cited_by_count":4}],"updated_date":"2026-06-16T09:24:06.705377","created_date":"2025-10-10T00:00:00"}