{"id":"https://openalex.org/W2996017884","doi":"https://doi.org/10.1093/bioinformatics/btz917","title":"A framework for exhaustive modelling of genetic interaction patterns using Petri nets","display_name":"A framework for exhaustive modelling of genetic interaction patterns using Petri nets","publication_year":2019,"publication_date":"2019-12-13","ids":{"openalex":"https://openalex.org/W2996017884","doi":"https://doi.org/10.1093/bioinformatics/btz917","mag":"2996017884","pmid":"https://pubmed.ncbi.nlm.nih.gov/31845959"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz917","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz917","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/7/2142/33027344/btz917.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/article-pdf/36/7/2142/33027344/btz917.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054615637","display_name":"Annika Jacobsen","orcid":"https://orcid.org/0000-0003-4818-2360"},"institutions":[{"id":"https://openalex.org/I865915315","display_name":"Vrije Universiteit Amsterdam","ror":"https://ror.org/008xxew50","country_code":"NL","type":"education","lineage":["https://openalex.org/I865915315"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Annika Jacobsen","raw_affiliation_strings":["Department of Computer Science, Centre for Integrative Bioinformatics (IBIVU), Vrije Universiteit Amsterdam , 1081 HV Amsterdam, Netherlands"],"raw_orcid":"https://orcid.org/0000-0003-4818-2360","affiliations":[{"raw_affiliation_string":"Department of Computer Science, Centre for Integrative Bioinformatics (IBIVU), Vrije Universiteit Amsterdam , 1081 HV Amsterdam, Netherlands","institution_ids":["https://openalex.org/I865915315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050497238","display_name":"Olga Ivanova","orcid":"https://orcid.org/0000-0002-9111-4593"},"institutions":[{"id":"https://openalex.org/I865915315","display_name":"Vrije Universiteit Amsterdam","ror":"https://ror.org/008xxew50","country_code":"NL","type":"education","lineage":["https://openalex.org/I865915315"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Olga Ivanova","raw_affiliation_strings":["Department of Computer Science, Centre for Integrative Bioinformatics (IBIVU), Vrije Universiteit Amsterdam , 1081 HV Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Centre for Integrative Bioinformatics (IBIVU), Vrije Universiteit Amsterdam , 1081 HV Amsterdam, Netherlands","institution_ids":["https://openalex.org/I865915315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046800431","display_name":"Saman Amini","orcid":null},"institutions":[{"id":"https://openalex.org/I3018483916","display_name":"University Medical Center Utrecht","ror":"https://ror.org/0575yy874","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I3018483916"]},{"id":"https://openalex.org/I4210127118","display_name":"Princess M\u00e1xima Center","ror":"https://ror.org/02aj7yc53","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I4210127118"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Saman Amini","raw_affiliation_strings":["Divison of Biomedical Genetics, Center for Molecular Medicine, University Medical Centre Utrecht , 3584 CX Utrecht, Netherlands","Princess M\u00e1xima Center for Pediatric Oncology, 3584 CS Utrecht , Netherlands","Divison of Biomedical Genetics, Center for Molecular Medicine, University Medical Centre Utrecht, 3584 CX Utrecht, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Divison of Biomedical Genetics, Center for Molecular Medicine, University Medical Centre Utrecht , 3584 CX Utrecht, Netherlands","institution_ids":["https://openalex.org/I3018483916"]},{"raw_affiliation_string":"Princess M\u00e1xima Center for Pediatric Oncology, 3584 CS Utrecht , Netherlands","institution_ids":["https://openalex.org/I4210127118"]},{"raw_affiliation_string":"Divison of Biomedical Genetics, Center for Molecular Medicine, University Medical Centre Utrecht, 3584 CX Utrecht, Netherlands","institution_ids":["https://openalex.org/I3018483916"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103164604","display_name":"Jaap Heringa","orcid":"https://orcid.org/0000-0001-8641-4930"},"institutions":[{"id":"https://openalex.org/I865915315","display_name":"Vrije Universiteit Amsterdam","ror":"https://ror.org/008xxew50","country_code":"NL","type":"education","lineage":["https://openalex.org/I865915315"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Jaap Heringa","raw_affiliation_strings":["Department of Computer Science, Centre for Integrative Bioinformatics (IBIVU), Vrije Universiteit Amsterdam , 1081 HV Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Centre for Integrative Bioinformatics (IBIVU), Vrije Universiteit Amsterdam , 1081 HV Amsterdam, Netherlands","institution_ids":["https://openalex.org/I865915315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072491065","display_name":"Patrick Kemmeren","orcid":"https://orcid.org/0000-0003-2237-7354"},"institutions":[{"id":"https://openalex.org/I3018483916","display_name":"University Medical Center Utrecht","ror":"https://ror.org/0575yy874","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I3018483916"]},{"id":"https://openalex.org/I4210127118","display_name":"Princess M\u00e1xima Center","ror":"https://ror.org/02aj7yc53","country_code":"NL","type":"healthcare","lineage":["https://openalex.org/I4210127118"]}],"countries":["NL"],"is_corresponding":false,"raw_author_name":"Patrick Kemmeren","raw_affiliation_strings":["Divison of Biomedical Genetics, Center for Molecular Medicine, University Medical Centre Utrecht , 3584 CX Utrecht, Netherlands","Princess M\u00e1xima Center for Pediatric Oncology, 3584 CS Utrecht , Netherlands","Divison of Biomedical Genetics, Center for Molecular Medicine, University Medical Centre Utrecht, 3584 CX Utrecht, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Divison of Biomedical Genetics, Center for Molecular Medicine, University Medical Centre Utrecht , 3584 CX Utrecht, Netherlands","institution_ids":["https://openalex.org/I3018483916"]},{"raw_affiliation_string":"Princess M\u00e1xima Center for Pediatric Oncology, 3584 CS Utrecht , Netherlands","institution_ids":["https://openalex.org/I4210127118"]},{"raw_affiliation_string":"Divison of Biomedical Genetics, Center for Molecular Medicine, University Medical Centre Utrecht, 3584 CX Utrecht, Netherlands","institution_ids":["https://openalex.org/I3018483916"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5041175377","display_name":"K. Anton Feenstra","orcid":"https://orcid.org/0000-0001-6755-9667"},"institutions":[{"id":"https://openalex.org/I865915315","display_name":"Vrije Universiteit Amsterdam","ror":"https://ror.org/008xxew50","country_code":"NL","type":"education","lineage":["https://openalex.org/I865915315"]}],"countries":["NL"],"is_corresponding":true,"raw_author_name":"K Anton Feenstra","raw_affiliation_strings":["Department of Computer Science, Centre for Integrative Bioinformatics (IBIVU), Vrije Universiteit Amsterdam , 1081 HV Amsterdam, Netherlands"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Centre for Integrative Bioinformatics (IBIVU), Vrije Universiteit Amsterdam , 1081 HV Amsterdam, Netherlands","institution_ids":["https://openalex.org/I865915315"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5041175377"],"corresponding_institution_ids":["https://openalex.org/I865915315"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":null,"fwci":0.2311,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.53365704,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":95},"biblio":{"volume":"36","issue":"7","first_page":"2142","last_page":"2149"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.8452000021934509,"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":0.8452000021934509,"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":0.03519999980926514,"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/T10885","display_name":"Gene expression and cancer classification","score":0.023900000378489494,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6808916330337524},{"id":"https://openalex.org/keywords/petri-net","display_name":"Petri net","score":0.6574634313583374},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4710535705089569},{"id":"https://openalex.org/keywords/underpinning","display_name":"Underpinning","score":0.4434010684490204},{"id":"https://openalex.org/keywords/node","display_name":"Node (physics)","score":0.4227936863899231},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4150720238685608},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3321591317653656},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.228834867477417},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.14030781388282776}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6808916330337524},{"id":"https://openalex.org/C38677869","wikidata":"https://www.wikidata.org/wiki/Q724168","display_name":"Petri net","level":2,"score":0.6574634313583374},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4710535705089569},{"id":"https://openalex.org/C2780871342","wikidata":"https://www.wikidata.org/wiki/Q7883752","display_name":"Underpinning","level":2,"score":0.4434010684490204},{"id":"https://openalex.org/C62611344","wikidata":"https://www.wikidata.org/wiki/Q1062658","display_name":"Node (physics)","level":2,"score":0.4227936863899231},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4150720238685608},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3321591317653656},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.228834867477417},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.14030781388282776},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0},{"id":"https://openalex.org/C147176958","wikidata":"https://www.wikidata.org/wiki/Q77590","display_name":"Civil engineering","level":1,"score":0.0},{"id":"https://openalex.org/C66938386","wikidata":"https://www.wikidata.org/wiki/Q633538","display_name":"Structural engineering","level":1,"score":0.0}],"mesh":[],"locations_count":7,"locations":[{"id":"doi:10.1093/bioinformatics/btz917","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz917","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/7/2142/33027344/btz917.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:31845959","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31845959","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":"Journal Article"},{"id":"pmh:oai:pure.amsterdamumc.nl:openaire/4426ae97-bd72-4af5-a8ac-20f6d09e9d46","is_oa":true,"landing_page_url":"https://pure.amsterdamumc.nl/en/publications/4426ae97-bd72-4af5-a8ac-20f6d09e9d46","pdf_url":null,"source":{"id":"https://openalex.org/S7407055222","display_name":"Pure Amsterdam UMC","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Jacobsen, A, Ivanova, O, Amini, S, Heringa, J, Kemmeren, P & Feenstra, K A 2020, 'A framework for exhaustive modelling of genetic interaction patterns using Petri nets', Bioinformatics (Oxford, England), vol. 36, no. 7, pp. 2142-2149. https://doi.org/10.1093/bioinformatics/btz917","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:amcpub:oai:pure.amc.nl:publications/74202db4-5a9b-4076-bcac-97d51f448cda","is_oa":true,"landing_page_url":"https://pure.amc.nl/en/publications/a-framework-for-exhaustive-modelling-of-genetic-interaction-patterns-using-petri-nets(74202db4-5a9b-4076-bcac-97d51f448cda).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"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":"Bioinformatics (Oxford, England), 36(7), 2142 - 2149. Oxford University Press","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:research.vu.nl:openaire/3ba2c1fc-b095-4de5-9e5e-a74a3555bc06","is_oa":false,"landing_page_url":"https://research.vu.nl/en/publications/3ba2c1fc-b095-4de5-9e5e-a74a3555bc06","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Jacobsen, A, Ivanova, O, Amini, S, Heringa, J, Kemmeren, P & Feenstra, K A 2020, 'A framework for exhaustive modelling of genetic interaction patterns using Petri nets', Bioinformatics, vol. 36, no. 7, pp. 2142-2149. https://doi.org/10.1093/bioinformatics/btz917","raw_type":"article"},{"id":"pmh:oai:research.vu.nl:publications/3ba2c1fc-b095-4de5-9e5e-a74a3555bc06","is_oa":false,"landing_page_url":"http://www.scopus.com/inward/citedby.url?scp=85083076833&partnerID=8YFLogxK","pdf_url":null,"source":{"id":"https://openalex.org/S4306401107","display_name":"VU Research Portal","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I865915315","host_organization_name":"Vrije Universiteit Amsterdam","host_organization_lineage":["https://openalex.org/I865915315"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Jacobsen, A, Ivanova, O, Amini, S, Heringa, J, Kemmeren, P & Feenstra, K A 2020, 'A framework for exhaustive modelling of genetic interaction patterns using Petri nets', Bioinformatics, vol. 36, no. 7, pp. 2142-2149. https://doi.org/10.1093/bioinformatics/btz917","raw_type":"article"},{"id":"pmh:vu:oai:research.vu.nl:publications/2386eb85-394c-43f4-ab75-c6299e303401","is_oa":false,"landing_page_url":"https://research.vu.nl/en/publications/2386eb85-394c-43f4-ab75-c6299e303401","pdf_url":null,"source":{"id":"https://openalex.org/S4306401843","display_name":"Data Archiving and Networked Services (DANS)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1322597698","host_organization_name":"Royal Netherlands Academy of Arts and Sciences","host_organization_lineage":["https://openalex.org/I1322597698"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 36(7), 2142 - 2149. Oxford University Press","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz917","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz917","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/7/2142/33027344/btz917.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/G3485778975","display_name":null,"funder_award_id":"612.001.203","funder_id":"https://openalex.org/F4320321800","funder_display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek"},{"id":"https://openalex.org/G869414066","display_name":null,"funder_award_id":"864.11.010","funder_id":"https://openalex.org/F4320321800","funder_display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek"}],"funders":[{"id":"https://openalex.org/F4320321800","display_name":"Nederlandse Organisatie voor Wetenschappelijk Onderzoek","ror":"https://ror.org/04jsz6e67"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2996017884.pdf","grobid_xml":"https://content.openalex.org/works/W2996017884.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1973081915","https://openalex.org/W1986397618","https://openalex.org/W1996109622","https://openalex.org/W2011835017","https://openalex.org/W2039053938","https://openalex.org/W2052815101","https://openalex.org/W2061004320","https://openalex.org/W2075665671","https://openalex.org/W2094189284","https://openalex.org/W2110699703","https://openalex.org/W2112441403","https://openalex.org/W2118215201","https://openalex.org/W2126886104","https://openalex.org/W2133569473","https://openalex.org/W2136453810","https://openalex.org/W2150627960","https://openalex.org/W2153624566","https://openalex.org/W2159460045","https://openalex.org/W2165054897","https://openalex.org/W2205662772","https://openalex.org/W2402275317","https://openalex.org/W2430015611","https://openalex.org/W2522417827","https://openalex.org/W2568548065","https://openalex.org/W2607429263","https://openalex.org/W2613291854","https://openalex.org/W2615193235","https://openalex.org/W2622791909","https://openalex.org/W2883298882","https://openalex.org/W2897511701","https://openalex.org/W2939295728","https://openalex.org/W2951404033","https://openalex.org/W4230861968"],"related_works":["https://openalex.org/W623382837","https://openalex.org/W2155197844","https://openalex.org/W2349226017","https://openalex.org/W2349376052","https://openalex.org/W4388543378","https://openalex.org/W2375628069","https://openalex.org/W2358280189","https://openalex.org/W2369522881","https://openalex.org/W2368038429","https://openalex.org/W2385019461"],"abstract_inverted_index":{"MOTIVATION:":[0],"Genetic":[1],"interaction":[2],"(GI)":[3],"patterns":[4,63],"are":[5,123,150],"characterized":[6],"by":[7],"the":[8,19,45,98,118],"phenotypes":[9,119],"of":[10,22,29,48,61,89,114,120],"interacting":[11],"single":[12],"and":[13,36,72,102],"double":[14],"mutated":[15],"gene":[16,121],"pairs.":[17],"Uncovering":[18],"regulatory":[20,135],"mechanisms":[21,47,96,113],"GIs":[23,115],"would":[24],"provide":[25,42],"a":[26,56],"better":[27],"understanding":[28],"their":[30],"role":[31],"in":[32],"biological":[33],"processes,":[34],"diseases":[35],"drug":[37],"response.":[38],"Computational":[39],"analyses":[40],"can":[41,127],"insights":[43],"into":[44],"underpinning":[46],"GIs.":[49,90],"RESULTS:":[50],"In":[51],"this":[52],"study,":[53],"we":[54,93],"present":[55],"framework":[57,126,141],"for":[58,97],"exhaustive":[59,82,107],"modelling":[60,109],"GI":[62,99,132],"using":[64],"Petri":[65],"nets":[66],"(PN).":[67],"Four-node":[68],"models":[69,88],"were":[70],"defined":[71],"generated":[73],"on":[74],"three":[75],"levels":[76],"with":[77],"restrictions,":[78],"to":[79,130],"enable":[80],"an":[81],"approach.":[83],"Simulations":[84],"suggest":[85],"\u223c5":[86],"million":[87],"Generalizing":[91],"these":[92],"propose":[94],"putative":[95],"patterns,":[100],"inversion":[101],"suppression.":[103],"We":[104],"demonstrate":[105],"that":[106],"PN":[108],"enables":[110],"reasoning":[111],"about":[112],"when":[116],"only":[117],"pairs":[122],"known.":[124],"The":[125,140],"be":[128],"applied":[129],"other":[131],"or":[133],"genetic":[134],"datasets.":[136],"AVAILABILITY":[137],"AND":[138],"IMPLEMENTATION:":[139],"is":[142],"available":[143,151],"at":[144,152],"http://www.ibi.vu.nl/programs/ExhMod.":[145],"SUPPLEMENTARY":[146],"INFORMATION:":[147],"Supplementary":[148],"data":[149],"Bioinformatics":[153],"online.":[154]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1}],"updated_date":"2026-09-06T09:10:53.072986","created_date":"2025-10-10T00:00:00"}
