{"id":"https://openalex.org/W3112100299","doi":"https://doi.org/10.1093/bioinformatics/btab227","title":"AMICI: high-performance sensitivity analysis for large ordinary differential equation models","display_name":"AMICI: high-performance sensitivity analysis for large ordinary differential equation models","publication_year":2021,"publication_date":"2021-04-01","ids":{"openalex":"https://openalex.org/W3112100299","doi":"https://doi.org/10.1093/bioinformatics/btab227","mag":"3112100299","pmid":"https://pubmed.ncbi.nlm.nih.gov/33821950"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab227","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab227","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/20/3676/40853865/btab227.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"preprint","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/37/20/3676/40853865/btab227.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5003197068","display_name":"Fabian Fr\u00f6hlich","orcid":"https://orcid.org/0000-0002-5360-4292"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I4210155419","display_name":"Center for Systems Biology","ror":"https://ror.org/05r3dyn47","country_code":"US","type":"facility","lineage":["https://openalex.org/I136199984","https://openalex.org/I4210087915","https://openalex.org/I4210155419","https://openalex.org/I48633490"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Fabian Fr\u00f6hlich","raw_affiliation_strings":["Department of Systems Biology, Harvard Medical School , Boston, MA 02115, USA","Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA"],"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Harvard Medical School , Boston, MA 02115, USA","institution_ids":["https://openalex.org/I4210155419","https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA","institution_ids":["https://openalex.org/I4210155419","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014811978","display_name":"Daniel Weindl","orcid":"https://orcid.org/0000-0001-9963-6057"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Daniel Weindl","raw_affiliation_strings":["Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany","Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen - German Research Center for Environmental Health, 85764 Neuherberg, Germany"],"affiliations":[{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany","institution_ids":["https://openalex.org/I3018134672"]},{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen - German Research Center for Environmental Health, 85764 Neuherberg, Germany","institution_ids":["https://openalex.org/I3018134672"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082656548","display_name":"Yannik Sch\u00e4lte","orcid":"https://orcid.org/0000-0003-1293-820X"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Yannik Sch\u00e4lte","raw_affiliation_strings":["Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany","Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany","Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen, Garching 85748, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany","institution_ids":["https://openalex.org/I3018134672"]},{"raw_affiliation_string":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen, Garching 85748, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029598458","display_name":"Dilan Pathirana","orcid":"https://orcid.org/0000-0001-7000-2659"},"institutions":[{"id":"https://openalex.org/I135140700","display_name":"University of Bonn","ror":"https://ror.org/041nas322","country_code":"DE","type":"education","lineage":["https://openalex.org/I135140700"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Dilan Pathirana","raw_affiliation_strings":["Faculty of Mathematics and Natural Sciences, University of Bonn , Bonn 53113, Germany","Faculty of Mathematics and Natural Sciences, University of Bonn, 53113 Bonn, Germany"],"affiliations":[{"raw_affiliation_string":"Faculty of Mathematics and Natural Sciences, University of Bonn , Bonn 53113, Germany","institution_ids":["https://openalex.org/I135140700"]},{"raw_affiliation_string":"Faculty of Mathematics and Natural Sciences, University of Bonn, 53113 Bonn, Germany","institution_ids":["https://openalex.org/I135140700"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011716508","display_name":"\u0141ukasz Paszkowski","orcid":null},"institutions":[{"id":"https://openalex.org/I2799829267","display_name":"Simula Research Laboratory","ror":"https://ror.org/00vn06n10","country_code":"NO","type":"facility","lineage":["https://openalex.org/I2799829267"]},{"id":"https://openalex.org/I4210147705","display_name":"Simula School","ror":"https://ror.org/052gr5r08","country_code":"NO","type":"education","lineage":["https://openalex.org/I2799829267","https://openalex.org/I4210147705"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"\u0141ukasz Paszkowski","raw_affiliation_strings":["Simula Research , Lysaker 1325, Norway","Simula Research, 1325 Lysaker, Norway"],"affiliations":[{"raw_affiliation_string":"Simula Research , Lysaker 1325, Norway","institution_ids":["https://openalex.org/I2799829267"]},{"raw_affiliation_string":"Simula Research, 1325 Lysaker, Norway","institution_ids":["https://openalex.org/I2799829267","https://openalex.org/I4210147705"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013534678","display_name":"Glenn Terje Lines","orcid":"https://orcid.org/0000-0002-5512-8525"},"institutions":[{"id":"https://openalex.org/I2799829267","display_name":"Simula Research Laboratory","ror":"https://ror.org/00vn06n10","country_code":"NO","type":"facility","lineage":["https://openalex.org/I2799829267"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Glenn Terje Lines","raw_affiliation_strings":["Simula Research , Lysaker 1325, Norway","Simula Research, Lysaker 1325, Norway"],"affiliations":[{"raw_affiliation_string":"Simula Research , Lysaker 1325, Norway","institution_ids":["https://openalex.org/I2799829267"]},{"raw_affiliation_string":"Simula Research, Lysaker 1325, Norway","institution_ids":["https://openalex.org/I2799829267"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038659090","display_name":"Paul Stapor","orcid":"https://orcid.org/0000-0002-7567-3985"},"institutions":[{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Paul Stapor","raw_affiliation_strings":["Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany","Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany","Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen, Garching 85748, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany","institution_ids":["https://openalex.org/I3018134672"]},{"raw_affiliation_string":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen, Garching 85748, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5063254041","display_name":"Jan Hasenauer","orcid":"https://orcid.org/0000-0002-4935-3312"},"institutions":[{"id":"https://openalex.org/I135140700","display_name":"University of Bonn","ror":"https://ror.org/041nas322","country_code":"DE","type":"education","lineage":["https://openalex.org/I135140700"]},{"id":"https://openalex.org/I3018134672","display_name":"Helmholtz Zentrum M\u00fcnchen","ror":"https://ror.org/00cfam450","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I3018134672"]},{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Jan Hasenauer","raw_affiliation_strings":["Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany","Faculty of Mathematics and Natural Sciences, University of Bonn , Bonn 53113, Germany","Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany","Faculty of Mathematics and Natural Sciences, University of Bonn, Bonn 53113, Germany","Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen, Garching 85748, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany","institution_ids":["https://openalex.org/I62916508"]},{"raw_affiliation_string":"Faculty of Mathematics and Natural Sciences, University of Bonn , Bonn 53113, Germany","institution_ids":["https://openalex.org/I135140700"]},{"raw_affiliation_string":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany","institution_ids":["https://openalex.org/I3018134672"]},{"raw_affiliation_string":"Faculty of Mathematics and Natural Sciences, University of Bonn, Bonn 53113, Germany","institution_ids":["https://openalex.org/I135140700"]},{"raw_affiliation_string":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen, Garching 85748, Germany","institution_ids":["https://openalex.org/I62916508"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5003197068","https://openalex.org/A5063254041"],"corresponding_institution_ids":["https://openalex.org/I135140700","https://openalex.org/I136199984","https://openalex.org/I3018134672","https://openalex.org/I4210155419","https://openalex.org/I62916508"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.1387,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.76808396,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"37","issue":"20","first_page":"3676","last_page":"3677"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998000264167786,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998000264167786,"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":0.9830999970436096,"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/T11829","display_name":"Mathematical Biology Tumor Growth","score":0.9830999970436096,"subfield":{"id":"https://openalex.org/subfields/2611","display_name":"Modeling and Simulation"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.829944372177124},{"id":"https://openalex.org/keywords/matlab","display_name":"MATLAB","score":0.7097198367118835},{"id":"https://openalex.org/keywords/toolbox","display_name":"Toolbox","score":0.6944953203201294},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6708626747131348},{"id":"https://openalex.org/keywords/modular-design","display_name":"Modular design","score":0.6169394254684448},{"id":"https://openalex.org/keywords/ordinary-differential-equation","display_name":"Ordinary differential equation","score":0.5852639079093933},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.5525352358818054},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5320450067520142},{"id":"https://openalex.org/keywords/sensitivity","display_name":"Sensitivity (control systems)","score":0.5311689972877502},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.5207186341285706},{"id":"https://openalex.org/keywords/limiting","display_name":"Limiting","score":0.5084768533706665},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3869713544845581},{"id":"https://openalex.org/keywords/differential-equation","display_name":"Differential equation","score":0.35470807552337646},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.33260926604270935},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.3099950850009918},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.30499762296676636},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.19642740488052368},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.11157089471817017},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.09256431460380554},{"id":"https://openalex.org/keywords/electronic-engineering","display_name":"Electronic engineering","score":0.08822578191757202}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.829944372177124},{"id":"https://openalex.org/C2780365114","wikidata":"https://www.wikidata.org/wiki/Q169478","display_name":"MATLAB","level":2,"score":0.7097198367118835},{"id":"https://openalex.org/C2777655017","wikidata":"https://www.wikidata.org/wiki/Q1501161","display_name":"Toolbox","level":2,"score":0.6944953203201294},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6708626747131348},{"id":"https://openalex.org/C101468663","wikidata":"https://www.wikidata.org/wiki/Q1620158","display_name":"Modular design","level":2,"score":0.6169394254684448},{"id":"https://openalex.org/C51544822","wikidata":"https://www.wikidata.org/wiki/Q465274","display_name":"Ordinary differential equation","level":3,"score":0.5852639079093933},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.5525352358818054},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5320450067520142},{"id":"https://openalex.org/C21200559","wikidata":"https://www.wikidata.org/wiki/Q7451068","display_name":"Sensitivity (control systems)","level":2,"score":0.5311689972877502},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.5207186341285706},{"id":"https://openalex.org/C188198153","wikidata":"https://www.wikidata.org/wiki/Q1613840","display_name":"Limiting","level":2,"score":0.5084768533706665},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3869713544845581},{"id":"https://openalex.org/C78045399","wikidata":"https://www.wikidata.org/wiki/Q11214","display_name":"Differential equation","level":2,"score":0.35470807552337646},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.33260926604270935},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.3099950850009918},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.30499762296676636},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.19642740488052368},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.11157089471817017},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.09256431460380554},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.08822578191757202},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[],"locations_count":25,"locations":[{"id":"doi:10.1093/bioinformatics/btab227","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab227","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/20/3676/40853865/btab227.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33821950","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33821950","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:doi:10.5281/zenodo.18784127","is_oa":true,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4406922384","display_name":"Open MIND","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":null,"raw_type":"Software"},{"id":"pmh:doi:10.5281/zenodo.18999832","is_oa":true,"landing_page_url":"https://github.com/AMICI-dev/AMICI/tree/v1.0.1","pdf_url":null,"source":{"id":"https://openalex.org/S4406922384","display_name":"Open MIND","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":null,"raw_type":"Software"},{"id":"pmh:oai:zenodo.org:11209887","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.11209887","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:11854619","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.11854619","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:12625734","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.12625734","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:12722029","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.12722029","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:13842756","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.13842756","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:13886849","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.13886849","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:13959940","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.13959940","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:14065183","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.14065183","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:14235651","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.14235651","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:14364716","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.14364716","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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/other"},{"id":"pmh:oai:zenodo.org:14888919","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.14888919","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"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":null,"raw_type":"info:eu-repo/semantics/other"},{"id":"doi:10.5281/zenodo.14887081","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.14887081","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.15065342","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.15065342","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.15267939","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.15267939","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.15427825","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.15427825","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.15644279","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.15644279","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.16572689","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.16572689","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.16961806","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.16961806","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.17513028","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.17513028","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.18784127","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.18784127","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"},{"id":"doi:10.5281/zenodo.18999832","is_oa":true,"landing_page_url":"https://doi.org/10.5281/zenodo.18999832","pdf_url":null,"source":{"id":"https://openalex.org/S4306400562","display_name":"Zenodo (CERN European Organization for Nuclear Research)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab227","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab227","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/20/3676/40853865/btab227.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","score":0.4399999976158142,"display_name":"Partnerships for the goals"}],"awards":[{"id":"https://openalex.org/G1521016025","display_name":null,"funder_award_id":"390685813","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G2257353674","display_name":null,"funder_award_id":"LT000259/2019-L1","funder_id":"https://openalex.org/F4320307846","funder_display_name":"Human Frontier Science Program"},{"id":"https://openalex.org/G2677494621","display_name":null,"funder_award_id":"HA7376/1-1","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G4606494704","display_name":null,"funder_award_id":"01ZX1705A","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G4787627496","display_name":null,"funder_award_id":"01ZX1916A","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G5127146920","display_name":null,"funder_award_id":"EXC-2047/1","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6238101420","display_name":null,"funder_award_id":"686282","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G687830878","display_name":null,"funder_award_id":"EXC-2047/1-390685813","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G7515004340","display_name":"Generation of the CanPath prototype - a platform for predictive cancer pathway modeling","funder_award_id":"686282","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G7842005466","display_name":null,"funder_award_id":"Horizon 2020","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G7984835289","display_name":null,"funder_award_id":"90685813","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G8254834712","display_name":null,"funder_award_id":"031L0159C","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"}],"funders":[{"id":"https://openalex.org/F4320307846","display_name":"Human Frontier Science Program","ror":"https://ror.org/02ebx7v45"},{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3112100299.pdf","grobid_xml":"https://content.openalex.org/works/W3112100299.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W2097240335","https://openalex.org/W2118076222","https://openalex.org/W2134221731","https://openalex.org/W2150908245","https://openalex.org/W2166751342","https://openalex.org/W2303100661","https://openalex.org/W2417863416","https://openalex.org/W2807744179","https://openalex.org/W2902000707","https://openalex.org/W2949499968","https://openalex.org/W2952056515","https://openalex.org/W2964392985","https://openalex.org/W2997148015","https://openalex.org/W3014365047","https://openalex.org/W3125399711","https://openalex.org/W6749572577"],"related_works":["https://openalex.org/W2944317075","https://openalex.org/W2166071821","https://openalex.org/W3106514255","https://openalex.org/W3005123593","https://openalex.org/W2280316597","https://openalex.org/W2308049548","https://openalex.org/W2002985592","https://openalex.org/W2081972103","https://openalex.org/W2793858867","https://openalex.org/W2980472723","https://openalex.org/W2027369479","https://openalex.org/W2120815021","https://openalex.org/W2020695119","https://openalex.org/W1883155716","https://openalex.org/W2777113731","https://openalex.org/W2112815568","https://openalex.org/W897104830","https://openalex.org/W3193760048","https://openalex.org/W2136829296","https://openalex.org/W3162336436"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2020-12-21T00:00:00"}
