{"id":"https://openalex.org/W2100322001","doi":"https://doi.org/10.1093/bioinformatics/btu481","title":"ASP-G: an ASP-based method for finding attractors in genetic regulatory networks","display_name":"ASP-G: an ASP-based method for finding attractors in genetic regulatory networks","publication_year":2014,"publication_date":"2014-07-15","ids":{"openalex":"https://openalex.org/W2100322001","doi":"https://doi.org/10.1093/bioinformatics/btu481","mag":"2100322001","pmid":"https://pubmed.ncbi.nlm.nih.gov/25028722"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu481","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu481","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/21/3086/48930793/bioinformatics_30_21_3086.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/30/21/3086/48930793/bioinformatics_30_21_3086.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5035595401","display_name":"Mushthofa Mushthofa","orcid":"https://orcid.org/0000-0003-4991-4148"},"institutions":[{"id":"https://openalex.org/I32597200","display_name":"Ghent University","ror":"https://ror.org/00cv9y106","country_code":"BE","type":"education","lineage":["https://openalex.org/I32597200"]},{"id":"https://openalex.org/I39327780","display_name":"iMinds","ror":"https://ror.org/03baec336","country_code":"BE","type":"nonprofit","lineage":["https://openalex.org/I39327780"]},{"id":"https://openalex.org/I69552723","display_name":"University of Pretoria","ror":"https://ror.org/00g0p6g84","country_code":"ZA","type":"education","lineage":["https://openalex.org/I69552723"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","ZA"],"is_corresponding":false,"raw_author_name":"Mushthofa Mushthofa","raw_affiliation_strings":["1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA","institution_ids":["https://openalex.org/I32597200","https://openalex.org/I39327780","https://openalex.org/I69552723","https://openalex.org/I99464096"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010342265","display_name":"Gustavo Torres","orcid":"https://orcid.org/0000-0003-1675-5400"},"institutions":[{"id":"https://openalex.org/I32597200","display_name":"Ghent University","ror":"https://ror.org/00cv9y106","country_code":"BE","type":"education","lineage":["https://openalex.org/I32597200"]},{"id":"https://openalex.org/I39327780","display_name":"iMinds","ror":"https://ror.org/03baec336","country_code":"BE","type":"nonprofit","lineage":["https://openalex.org/I39327780"]},{"id":"https://openalex.org/I69552723","display_name":"University of Pretoria","ror":"https://ror.org/00g0p6g84","country_code":"ZA","type":"education","lineage":["https://openalex.org/I69552723"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","ZA"],"is_corresponding":false,"raw_author_name":"Gustavo Torres","raw_affiliation_strings":["1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA","institution_ids":["https://openalex.org/I32597200","https://openalex.org/I39327780","https://openalex.org/I69552723","https://openalex.org/I99464096"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070738091","display_name":"Yves Van de Peer","orcid":"https://orcid.org/0000-0003-4327-3730"},"institutions":[{"id":"https://openalex.org/I32597200","display_name":"Ghent University","ror":"https://ror.org/00cv9y106","country_code":"BE","type":"education","lineage":["https://openalex.org/I32597200"]},{"id":"https://openalex.org/I39327780","display_name":"iMinds","ror":"https://ror.org/03baec336","country_code":"BE","type":"nonprofit","lineage":["https://openalex.org/I39327780"]},{"id":"https://openalex.org/I69552723","display_name":"University of Pretoria","ror":"https://ror.org/00g0p6g84","country_code":"ZA","type":"education","lineage":["https://openalex.org/I69552723"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","ZA"],"is_corresponding":false,"raw_author_name":"Yves Van de Peer","raw_affiliation_strings":["1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA","institution_ids":["https://openalex.org/I32597200","https://openalex.org/I39327780","https://openalex.org/I69552723","https://openalex.org/I99464096"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044805939","display_name":"Kathleen Marchal","orcid":"https://orcid.org/0000-0002-2169-4588"},"institutions":[{"id":"https://openalex.org/I32597200","display_name":"Ghent University","ror":"https://ror.org/00cv9y106","country_code":"BE","type":"education","lineage":["https://openalex.org/I32597200"]},{"id":"https://openalex.org/I39327780","display_name":"iMinds","ror":"https://ror.org/03baec336","country_code":"BE","type":"nonprofit","lineage":["https://openalex.org/I39327780"]},{"id":"https://openalex.org/I69552723","display_name":"University of Pretoria","ror":"https://ror.org/00g0p6g84","country_code":"ZA","type":"education","lineage":["https://openalex.org/I69552723"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","ZA"],"is_corresponding":true,"raw_author_name":"Kathleen Marchal","raw_affiliation_strings":["1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA","institution_ids":["https://openalex.org/I32597200","https://openalex.org/I39327780","https://openalex.org/I69552723","https://openalex.org/I99464096"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056749857","display_name":"Martine De Cock","orcid":"https://orcid.org/0000-0001-7917-0771"},"institutions":[{"id":"https://openalex.org/I32597200","display_name":"Ghent University","ror":"https://ror.org/00cv9y106","country_code":"BE","type":"education","lineage":["https://openalex.org/I32597200"]},{"id":"https://openalex.org/I39327780","display_name":"iMinds","ror":"https://ror.org/03baec336","country_code":"BE","type":"nonprofit","lineage":["https://openalex.org/I39327780"]},{"id":"https://openalex.org/I69552723","display_name":"University of Pretoria","ror":"https://ror.org/00g0p6g84","country_code":"ZA","type":"education","lineage":["https://openalex.org/I69552723"]},{"id":"https://openalex.org/I99464096","display_name":"KU Leuven","ror":"https://ror.org/05f950310","country_code":"BE","type":"education","lineage":["https://openalex.org/I99464096"]}],"countries":["BE","ZA"],"is_corresponding":true,"raw_author_name":"Martine De Cock","raw_affiliation_strings":["1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Krijgslaan 281 (S9), 9000 Ghent, 2 Department of Plant Systems Biology, VIB Technologiepark 927, 3 Department of Plant Biotechnology and Bioinformatics, Ghent University Technologiepark 927, 9052 Ghent, Belgium, 4 Genomics Research Institute (GRI), University of Pretoria, Private bag X20, Pretoria 0028, South Africa, 5 Department of Microbial and Molecular Systems, KU Leuven, Kasteelpark, Arenberg 20, 3001 Leuven, Belgium, 6 Department of Information Technology, IMinds, Ghent University, Gaston Crommenlaan 8, B-9050 Ghent, Belgium and 7 Center for Web and Data Science, Institute of Technology, University of Washington Tacoma, 1900 Commerce Street, Tacoma, WA-98402, USA","institution_ids":["https://openalex.org/I32597200","https://openalex.org/I39327780","https://openalex.org/I69552723","https://openalex.org/I99464096"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5044805939","https://openalex.org/A5056749857"],"corresponding_institution_ids":["https://openalex.org/I32597200","https://openalex.org/I39327780","https://openalex.org/I69552723","https://openalex.org/I99464096"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.9098,"has_fulltext":true,"cited_by_count":16,"citation_normalized_percentile":{"value":0.7329818,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"30","issue":"21","first_page":"3086","last_page":"3092"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9968000054359436,"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":0.9968000054359436,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.00039999998989515007,"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":0.00019999999494757503,"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":0.5881420373916626},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.580052375793457},{"id":"https://openalex.org/keywords/attractor","display_name":"Attractor","score":0.43956902623176575},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.32910993695259094},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3202650547027588},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.21660715341567993}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5881420373916626},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.580052375793457},{"id":"https://openalex.org/C164380108","wikidata":"https://www.wikidata.org/wiki/Q507187","display_name":"Attractor","level":2,"score":0.43956902623176575},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.32910993695259094},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3202650547027588},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.21660715341567993},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/btu481","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu481","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/21/3086/48930793/bioinformatics_30_21_3086.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:25028722","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25028722","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:CiteSeerX.psu:10.1.1.643.9919","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.643.9919","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.cwi.ugent.be/martine/papers/volledig/mushthofa2014b.pdf","raw_type":"text"},{"id":"pmh:oai:archive.ugent.be:5696723","is_oa":false,"landing_page_url":"https://biblio.ugent.be/publication/5696723","pdf_url":null,"source":{"id":"https://openalex.org/S4306400478","display_name":"Ghent University Academic Bibliography (Ghent University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I32597200","host_organization_name":"Ghent University","host_organization_lineage":["https://openalex.org/I32597200"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ISSN: 1367-4803","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4609008","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4609008","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:repository.up.ac.za:2263/50019","is_oa":false,"landing_page_url":"http://hdl.handle.net/2263/50019","pdf_url":null,"source":{"id":"https://openalex.org/S4306401870","display_name":"UpSpace Institutional Repository (University of Pretoria)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I69552723","host_organization_name":"University of Pretoria","host_organization_lineage":["https://openalex.org/I69552723"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Postprint Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu481","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu481","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/21/3086/48930793/bioinformatics_30_21_3086.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":[{"display_name":"Partnerships for the goals","score":0.4399999976158142,"id":"https://metadata.un.org/sdg/17"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321730","display_name":"Fonds Wetenschappelijk Onderzoek","ror":"https://ror.org/03qtxy027"},{"id":"https://openalex.org/F4320322603","display_name":"Universiteit Gent","ror":"https://ror.org/00cv9y106"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2100322001.pdf","grobid_xml":"https://content.openalex.org/works/W2100322001.grobid-xml"},"referenced_works_count":53,"referenced_works":["https://openalex.org/W23241257","https://openalex.org/W46480492","https://openalex.org/W1256890642","https://openalex.org/W1482498688","https://openalex.org/W1482532598","https://openalex.org/W1493523706","https://openalex.org/W1501758783","https://openalex.org/W1572578464","https://openalex.org/W1584531404","https://openalex.org/W1606860353","https://openalex.org/W1633347946","https://openalex.org/W1903938722","https://openalex.org/W1937581028","https://openalex.org/W1964680470","https://openalex.org/W1989284002","https://openalex.org/W1990139847","https://openalex.org/W2033610638","https://openalex.org/W2046538693","https://openalex.org/W2048013262","https://openalex.org/W2053961182","https://openalex.org/W2058221907","https://openalex.org/W2065546165","https://openalex.org/W2069650148","https://openalex.org/W2072891907","https://openalex.org/W2091570353","https://openalex.org/W2092264363","https://openalex.org/W2099251677","https://openalex.org/W2101428010","https://openalex.org/W2105254505","https://openalex.org/W2107189447","https://openalex.org/W2108020239","https://openalex.org/W2110804558","https://openalex.org/W2114518254","https://openalex.org/W2122902176","https://openalex.org/W2130721915","https://openalex.org/W2136559804","https://openalex.org/W2139391027","https://openalex.org/W2141368462","https://openalex.org/W2144501202","https://openalex.org/W2162459693","https://openalex.org/W2166214692","https://openalex.org/W2169304553","https://openalex.org/W2493995303","https://openalex.org/W2503490136","https://openalex.org/W2612793397","https://openalex.org/W2911779055","https://openalex.org/W4388252848","https://openalex.org/W6601908084","https://openalex.org/W6628661260","https://openalex.org/W6636646056","https://openalex.org/W6639535287","https://openalex.org/W6641453604","https://openalex.org/W6676060594"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W1971568933","https://openalex.org/W2013243191"],"abstract_inverted_index":{"MOTIVATION:":[0],"Boolean":[1,94,139],"network":[2,95,140,169],"models":[3,96,141,170],"are":[4,62,114],"suitable":[5],"to":[6,74,92,100,231],"simulate":[7,93],"GRNs":[8,98],"in":[9,137,191],"the":[10,18,37,45,49,52,58,117,133,151,176,213,219],"absence":[11],"of":[12,44,51,97,135,153,155,164,168,188,209,215,240],"detailed":[13],"kinetic":[14],"information.":[15],"However,":[16],"reducing":[17],"biological":[19,82],"reality":[20],"implies":[21,68],"making":[22,196],"assumptions":[23,46,61,106,147,177],"on":[24],"how":[25,31,165],"genes":[26],"interact":[27],"(interaction":[28],"rules)":[29],"and":[30,72,99,142,194,200],"their":[32,102],"state":[33],"is":[34,85,190,242],"updated":[35],"during":[36],"simulation":[38,66,126,167],"(update":[39],"scheme).":[40],"The":[41,184,206,237],"exact":[42],"choice":[43],"largely":[47],"determines":[48],"outcome":[50],"simulations.":[53],"In":[54],"most":[55,89],"cases,":[56],"however,":[57],"biologically":[59],"correct":[60],"unknown.":[63],"An":[64],"ideal":[65],"thus":[67],"testing":[69],"different":[70,146,172],"rules":[71],"schemes":[73],"determine":[75,175],"those":[76],"that":[77,107],"best":[78],"capture":[79],"an":[80,162],"observed":[81],"phenomenon.":[83],"This":[84],"not":[86],"trivial":[87],"because":[88],"current":[90],"methods":[91],"compute":[101],"attractors":[103,144,154],"impose":[104],"specific":[105],"cannot":[108],"be":[109],"easily":[110],"altered,":[111],"as":[112],"they":[113],"built":[115],"into":[116],"system.":[118],"RESULTS:":[119],"To":[120],"allow":[121],"for":[122],"a":[123,180,226],"more":[124,198,220],"flexible":[125,199],"framework,":[127],"we":[128],"developed":[129],"ASP-G.":[130],"We":[131,159],"show":[132],"correctness":[134],"ASP-G":[136,189,210,241],"simulating":[138],"obtaining":[143],"under":[145,171,178],"by":[148],"successfully":[149],"recapitulating":[150],"detection":[152],"previously":[156],"published":[157],"studies.":[158],"also":[160],"provide":[161],"example":[163],"performing":[166],"settings":[173],"help":[174],"which":[179],"certain":[181],"conclusion":[182],"holds.":[183],"main":[185],"added":[186],"value":[187],"its":[192],"modularity":[193],"declarativity,":[195],"it":[197],"less":[201],"error-prone":[202],"than":[203,218],"traditional":[204],"approaches.":[205],"declarative":[207],"nature":[208],"comes":[211],"at":[212,244],"expense":[214],"being":[216],"slower":[217],"dedicated":[221],"systems":[222],"but":[223],"still":[224],"achieves":[225],"good":[227],"efficiency":[228],"with":[229],"respect":[230],"computational":[232],"time.":[233],"AVAILABILITY":[234],"AND":[235],"IMPLEMENTATION:":[236],"source":[238],"code":[239],"available":[243],"http://bioinformatics.intec.ugent.be/kmarchal/Supplementary_Information_Musthofa_2014/asp-g.zip.":[245]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
