{"id":"https://openalex.org/W3163778037","doi":"https://doi.org/10.1093/bioinformatics/btab335","title":"Visual exploration of large metabolic models","display_name":"Visual exploration of large metabolic models","publication_year":2021,"publication_date":"2021-04-30","ids":{"openalex":"https://openalex.org/W3163778037","doi":"https://doi.org/10.1093/bioinformatics/btab335","mag":"3163778037","pmid":"https://pubmed.ncbi.nlm.nih.gov/33970212"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab335","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab335","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btab335/39622121/btab335.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btab335/39622121/btab335.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042092786","display_name":"Michael Aichem","orcid":"https://orcid.org/0000-0002-1286-1372"},"institutions":[{"id":"https://openalex.org/I189712700","display_name":"University of Konstanz","ror":"https://ror.org/0546hnb39","country_code":"DE","type":"education","lineage":["https://openalex.org/I189712700"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Michael Aichem","raw_affiliation_strings":["Department of Computer and Information Science, University of Konstanz , 78464 Konstanz, Germany"],"raw_orcid":"https://orcid.org/0000-0002-1286-1372","affiliations":[{"raw_affiliation_string":"Department of Computer and Information Science, University of Konstanz , 78464 Konstanz, Germany","institution_ids":["https://openalex.org/I189712700"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035416919","display_name":"Tobias Czauderna","orcid":"https://orcid.org/0000-0002-1788-9593"},"institutions":[{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Tobias Czauderna","raw_affiliation_strings":["Faculty of Information Technology, Department of Human Centred-Computing, Monash University , Melbourne, VIC 3800, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Information Technology, Department of Human Centred-Computing, Monash University , Melbourne, VIC 3800, Australia","institution_ids":["https://openalex.org/I56590836"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041077139","display_name":"Yan Zhu","orcid":"https://orcid.org/0000-0001-7342-3782"},"institutions":[{"id":"https://openalex.org/I2801239119","display_name":"Australian Regenerative Medicine Institute","ror":"https://ror.org/02qa5kg76","country_code":"AU","type":"facility","lineage":["https://openalex.org/I2801037857","https://openalex.org/I2801239119","https://openalex.org/I56590836"]},{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Yan Zhu","raw_affiliation_strings":["Biomedicine Discovery Institute, Infection & Immunity Program and Department of Microbiology, Monash University , Melbourne, VIC 3800, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedicine Discovery Institute, Infection & Immunity Program and Department of Microbiology, Monash University , Melbourne, VIC 3800, Australia","institution_ids":["https://openalex.org/I2801239119","https://openalex.org/I56590836"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000189190","display_name":"Jinxin Zhao","orcid":"https://orcid.org/0000-0002-0604-3541"},"institutions":[{"id":"https://openalex.org/I2801239119","display_name":"Australian Regenerative Medicine Institute","ror":"https://ror.org/02qa5kg76","country_code":"AU","type":"facility","lineage":["https://openalex.org/I2801037857","https://openalex.org/I2801239119","https://openalex.org/I56590836"]},{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Jinxin Zhao","raw_affiliation_strings":["Biomedicine Discovery Institute, Infection & Immunity Program and Department of Microbiology, Monash University , Melbourne, VIC 3800, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedicine Discovery Institute, Infection & Immunity Program and Department of Microbiology, Monash University , Melbourne, VIC 3800, Australia","institution_ids":["https://openalex.org/I2801239119","https://openalex.org/I56590836"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040908598","display_name":"Matthias Klapperst\u00fcck","orcid":null},"institutions":[{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Matthias Klapperst\u00fcck","raw_affiliation_strings":["Faculty of Information Technology, Department of Human Centred-Computing, Monash University , Melbourne, VIC 3800, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Faculty of Information Technology, Department of Human Centred-Computing, Monash University , Melbourne, VIC 3800, Australia","institution_ids":["https://openalex.org/I56590836"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023110492","display_name":"Karsten Klein","orcid":"https://orcid.org/0000-0002-8345-5806"},"institutions":[{"id":"https://openalex.org/I189712700","display_name":"University of Konstanz","ror":"https://ror.org/0546hnb39","country_code":"DE","type":"education","lineage":["https://openalex.org/I189712700"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Karsten Klein","raw_affiliation_strings":["Department of Computer and Information Science, University of Konstanz , 78464 Konstanz, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer and Information Science, University of Konstanz , 78464 Konstanz, Germany","institution_ids":["https://openalex.org/I189712700"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100402427","display_name":"Jian Li","orcid":"https://orcid.org/0000-0001-7953-8230"},"institutions":[{"id":"https://openalex.org/I2801239119","display_name":"Australian Regenerative Medicine Institute","ror":"https://ror.org/02qa5kg76","country_code":"AU","type":"facility","lineage":["https://openalex.org/I2801037857","https://openalex.org/I2801239119","https://openalex.org/I56590836"]},{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Jian Li","raw_affiliation_strings":["Biomedicine Discovery Institute, Infection & Immunity Program and Department of Microbiology, Monash University , Melbourne, VIC 3800, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biomedicine Discovery Institute, Infection & Immunity Program and Department of Microbiology, Monash University , Melbourne, VIC 3800, Australia","institution_ids":["https://openalex.org/I2801239119","https://openalex.org/I56590836"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5003441276","display_name":"Falk Schreiber","orcid":"https://orcid.org/0000-0002-9307-3254"},"institutions":[{"id":"https://openalex.org/I189712700","display_name":"University of Konstanz","ror":"https://ror.org/0546hnb39","country_code":"DE","type":"education","lineage":["https://openalex.org/I189712700"]},{"id":"https://openalex.org/I56590836","display_name":"Monash University","ror":"https://ror.org/02bfwt286","country_code":"AU","type":"education","lineage":["https://openalex.org/I56590836"]}],"countries":["AU","DE"],"is_corresponding":false,"raw_author_name":"Falk Schreiber","raw_affiliation_strings":["Department of Computer and Information Science, University of Konstanz , 78464 Konstanz, Germany","Faculty of Information Technology, Department of Human Centred-Computing, Monash University , Melbourne, VIC 3800, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer and Information Science, University of Konstanz , 78464 Konstanz, Germany","institution_ids":["https://openalex.org/I189712700"]},{"raw_affiliation_string":"Faculty of Information Technology, Department of Human Centred-Computing, Monash University , Melbourne, VIC 3800, Australia","institution_ids":["https://openalex.org/I56590836"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5042092786"],"corresponding_institution_ids":["https://openalex.org/I189712700"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.6514,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.66546661,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"37","issue":"23","first_page":"4460","last_page":"4468"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9093000292778015,"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":0.9093000292778015,"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":0.013199999928474426,"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/T12643","display_name":"Sustainability and Ecological Systems Analysis","score":0.010700000450015068,"subfield":{"id":"https://openalex.org/subfields/2305","display_name":"Environmental Engineering"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8056386113166809},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.6847780346870422},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.6396180391311646},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.578116774559021},{"id":"https://openalex.org/keywords/decomposition","display_name":"Decomposition","score":0.5733744502067566},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.488739013671875},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.4831687808036804},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.4420928359031677},{"id":"https://openalex.org/keywords/software-visualization","display_name":"Software visualization","score":0.41761934757232666},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3638135492801666},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.3426954746246338},{"id":"https://openalex.org/keywords/software-system","display_name":"Software system","score":0.2587135434150696},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.22600677609443665},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.21707773208618164},{"id":"https://openalex.org/keywords/component-based-software-engineering","display_name":"Component-based software engineering","score":0.1401538848876953},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10206377506256104}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8056386113166809},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.6847780346870422},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.6396180391311646},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.578116774559021},{"id":"https://openalex.org/C124681953","wikidata":"https://www.wikidata.org/wiki/Q339062","display_name":"Decomposition","level":2,"score":0.5733744502067566},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.488739013671875},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.4831687808036804},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.4420928359031677},{"id":"https://openalex.org/C4379982","wikidata":"https://www.wikidata.org/wiki/Q1273511","display_name":"Software visualization","level":5,"score":0.41761934757232666},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3638135492801666},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.3426954746246338},{"id":"https://openalex.org/C149091818","wikidata":"https://www.wikidata.org/wiki/Q2429814","display_name":"Software system","level":3,"score":0.2587135434150696},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.22600677609443665},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.21707773208618164},{"id":"https://openalex.org/C174683762","wikidata":"https://www.wikidata.org/wiki/Q609588","display_name":"Component-based software engineering","level":4,"score":0.1401538848876953},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10206377506256104},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.0},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","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":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab335","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab335","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btab335/39622121/btab335.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33970212","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33970212","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:kops.uni-konstanz.de:123456789/53691","is_oa":true,"landing_page_url":"http://nbn-resolving.de/urn:nbn:de:bsz:352-2-tkyepulli65n8","pdf_url":null,"source":{"id":"https://openalex.org/S4306401487","display_name":"KOPS (University of Konstanz)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I189712700","host_organization_name":"University of Konstanz","host_organization_lineage":["https://openalex.org/I189712700"],"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":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab335","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab335","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btab335/39622121/btab335.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1616605873","display_name":null,"funder_award_id":"TRR 161","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G3131219531","display_name":null,"funder_award_id":"APP1127948","funder_id":"https://openalex.org/F4320334705","funder_display_name":"National Health and Medical Research Council"},{"id":"https://openalex.org/G551598660","display_name":null,"funder_award_id":"251654672\u2014TRR 161","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6401459825","display_name":"TRR 161: Quantitative Methoden f\u00fcr Visual Computing","funder_award_id":"251654672","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G7682765093","display_name":null,"funder_award_id":"Project-ID 251654672","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"},{"id":"https://openalex.org/F4320334705","display_name":"National Health and Medical Research Council","ror":"https://ror.org/011kf5r70"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3163778037.pdf","grobid_xml":"https://content.openalex.org/works/W3163778037.grobid-xml"},"referenced_works_count":58,"referenced_works":["https://openalex.org/W184287894","https://openalex.org/W1665355332","https://openalex.org/W1946371345","https://openalex.org/W1968286256","https://openalex.org/W1976327004","https://openalex.org/W1982659614","https://openalex.org/W1992153998","https://openalex.org/W1996791690","https://openalex.org/W1998767819","https://openalex.org/W1999758530","https://openalex.org/W2023098599","https://openalex.org/W2038264484","https://openalex.org/W2068146784","https://openalex.org/W2069157810","https://openalex.org/W2086144884","https://openalex.org/W2100084634","https://openalex.org/W2100980426","https://openalex.org/W2103170157","https://openalex.org/W2108036176","https://openalex.org/W2110065044","https://openalex.org/W2115137666","https://openalex.org/W2122407999","https://openalex.org/W2124419982","https://openalex.org/W2126465433","https://openalex.org/W2132206153","https://openalex.org/W2137439611","https://openalex.org/W2138110959","https://openalex.org/W2145265944","https://openalex.org/W2146384526","https://openalex.org/W2146958900","https://openalex.org/W2150908245","https://openalex.org/W2152186211","https://openalex.org/W2159675211","https://openalex.org/W2163993275","https://openalex.org/W2166927282","https://openalex.org/W2202347610","https://openalex.org/W2341446847","https://openalex.org/W2766891074","https://openalex.org/W2767914218","https://openalex.org/W2769811291","https://openalex.org/W2781939187","https://openalex.org/W2789128799","https://openalex.org/W2792585663","https://openalex.org/W2800340189","https://openalex.org/W2801218382","https://openalex.org/W2908658955","https://openalex.org/W2916475656","https://openalex.org/W2941164415","https://openalex.org/W2950329335","https://openalex.org/W2952015518","https://openalex.org/W2988361147","https://openalex.org/W2989744272","https://openalex.org/W3004243650","https://openalex.org/W3004505497","https://openalex.org/W3013554928","https://openalex.org/W4254464710","https://openalex.org/W6676198171","https://openalex.org/W6770460946"],"related_works":["https://openalex.org/W2386674074","https://openalex.org/W834755178","https://openalex.org/W2064191515","https://openalex.org/W1984601109","https://openalex.org/W2033226981","https://openalex.org/W1867947061","https://openalex.org/W2004099228","https://openalex.org/W4286008520","https://openalex.org/W4312541014","https://openalex.org/W4285288679"],"abstract_inverted_index":{"MOTIVATION:":[0],"Large":[1],"metabolic":[2,6,55],"models,":[3,7],"including":[4],"genome-scale":[5],"are":[8,100,191],"nowadays":[9],"common":[10],"in":[11,60,119,126,149,193],"systems":[12],"biology,":[13],"biotechnology":[14],"and":[15,23,25,32,57,102,107,117,124,172,176,187,206],"pharmacology.":[16],"They":[17],"typically":[18],"contain":[19],"thousands":[20],"of":[21,40,53,78,178,216],"metabolites":[22],"reactions":[24],"therefore":[26],"methods":[27,186],"for":[28,49,68,144,154,198],"their":[29],"automatic":[30],"visualization":[31],"interactive":[33],"exploration":[34,52],"can":[35,201,208],"facilitate":[36],"a":[37,46,84,91,150,169],"better":[38],"understanding":[39],"these":[41,98],"models.":[42],"RESULTS:":[43],"We":[44,164],"developed":[45],"novel":[47],"method":[48,80],"the":[50,69,162,166,174],"visual":[51],"large":[54,85],"models":[56],"implemented":[58,192],"it":[59],"LMME":[61,146,200,217],"(Large":[62],"Metabolic":[63],"Model":[64],"Explorer),":[65],"an":[66,103,195],"add-on":[67,143,197],"biological":[70],"network":[71],"analysis":[72,157],"tool":[73],"VANTED.":[74,199],"The":[75,185,213],"underlying":[76],"idea":[77],"our":[79],"is":[81,105,147,218],"to":[82,121],"analyze":[83],"model":[86],"as":[87,142],"follows.":[88],"Starting":[89],"from":[90,204,211,220],"decomposition":[92,180],"into":[93],"several":[94],"subsystems,":[95],"relationships":[96,125],"between":[97],"subsystems":[99,123],"identified":[101],"overview":[104],"computed":[106],"visualized.":[108],"From":[109],"this":[110],"overview,":[111],"detailed":[112],"subviews":[113],"may":[114,130],"be":[115,132,202,209],"constructed":[116],"visualized":[118],"order":[120],"explore":[122],"greater":[127],"detail.":[128],"Decompositions":[129],"either":[131],"predefined":[133],"or":[134,138],"computed,":[135],"using":[136],"built-in":[137],"self-implemented":[139],"methods.":[140,181],"Realized":[141],"VANTED,":[145],"embedded":[148],"domain-specific":[151],"environment,":[152],"allowing":[153],"further":[155],"related":[156],"at":[158,222],"any":[159],"stage":[160],"during":[161],"exploration.":[163],"describe":[165],"method,":[167],"provide":[168],"use":[170],"case":[171],"discuss":[173],"strengths":[175],"weaknesses":[177],"different":[179],"AVAILABILITY":[182],"AND":[183],"IMPLEMENTATION:":[184],"algorithms":[188],"presented":[189],"here":[190],"LMME,":[194],"open-source":[196],"downloaded":[203,210],"www.cls.uni-konstanz.de/software/lmme":[205],"VANTED":[207],"www.vanted.org.":[212],"source":[214],"code":[215],"available":[219],"GitHub,":[221],"https://github.com/LSI-UniKonstanz/lmme.":[223]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":3}],"updated_date":"2026-06-22T08:00:12.763002","created_date":"2025-10-10T00:00:00"}
