{"id":"https://openalex.org/W2576119444","doi":"https://doi.org/10.1093/bioinformatics/btw747","title":"Advanced Boolean modeling of biological networks applied to systems pharmacology","display_name":"Advanced Boolean modeling of biological networks applied to systems pharmacology","publication_year":2016,"publication_date":"2016-11-22","ids":{"openalex":"https://openalex.org/W2576119444","doi":"https://doi.org/10.1093/bioinformatics/btw747","mag":"2576119444","pmid":"https://pubmed.ncbi.nlm.nih.gov/28073755"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw747","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw747","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/7/1040/25149882/btw747.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/33/7/1040/25149882/btw747.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5013931444","display_name":"Itziar Irurzun\u2010Arana","orcid":"https://orcid.org/0000-0001-6084-4481"},"institutions":[{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Itziar Irurzun-Arana","raw_affiliation_strings":["Pharmacometrics & Systems Pharmacology, Department of Pharmacy and Pharmaceutical Technology, School of Pharmacy, University of Navarra, Pamplona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pharmacometrics & Systems Pharmacology, Department of Pharmacy and Pharmaceutical Technology, School of Pharmacy, University of Navarra, Pamplona, Spain","institution_ids":["https://openalex.org/I88155538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103730869","display_name":"Jos\u00e9 Mart\u00edn Pastor","orcid":null},"institutions":[{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 Mart\u00edn Pastor","raw_affiliation_strings":["Pharmacometrics & Systems Pharmacology, Department of Pharmacy and Pharmaceutical Technology, School of Pharmacy, University of Navarra, Pamplona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pharmacometrics & Systems Pharmacology, Department of Pharmacy and Pharmaceutical Technology, School of Pharmacy, University of Navarra, Pamplona, Spain","institution_ids":["https://openalex.org/I88155538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087528420","display_name":"I\u00f1aki F. Troc\u00f3niz","orcid":"https://orcid.org/0000-0003-3700-8658"},"institutions":[{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"I\u00f1aki F Troc\u00f3niz","raw_affiliation_strings":["Pharmacometrics & Systems Pharmacology, Department of Pharmacy and Pharmaceutical Technology, School of Pharmacy, University of Navarra, Pamplona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pharmacometrics & Systems Pharmacology, Department of Pharmacy and Pharmaceutical Technology, School of Pharmacy, University of Navarra, Pamplona, Spain","institution_ids":["https://openalex.org/I88155538"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022852784","display_name":"Jos\u00e9 David G\u00f3mez\u2010Mantilla","orcid":null},"institutions":[{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 David G\u00f3mez-Mantilla","raw_affiliation_strings":["Pharmacometrics & Systems Pharmacology, Department of Pharmacy and Pharmaceutical Technology, School of Pharmacy, University of Navarra, Pamplona, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Pharmacometrics & Systems Pharmacology, Department of Pharmacy and Pharmaceutical Technology, School of Pharmacy, University of Navarra, Pamplona, Spain","institution_ids":["https://openalex.org/I88155538"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5013931444","https://openalex.org/A5087528420"],"corresponding_institution_ids":["https://openalex.org/I88155538"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.8794,"has_fulltext":true,"cited_by_count":29,"citation_normalized_percentile":{"value":0.86348851,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":99},"biblio":{"volume":"33","issue":"7","first_page":"1040","last_page":"1048"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.8070999979972839,"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":0.8070999979972839,"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":0.04019999876618385,"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":0.03680000081658363,"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":0.6526477336883545},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.4622141718864441},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.40537264943122864},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.37800920009613037},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16909906268119812}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6526477336883545},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.4622141718864441},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.40537264943122864},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.37800920009613037},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16909906268119812}],"mesh":[{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btw747","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw747","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/7/1040/25149882/btw747.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:28073755","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28073755","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:dadun.unav.edu:10171/68391","is_oa":true,"landing_page_url":"https://hdl.handle.net/10171/68391","pdf_url":"https://dadun.unav.edu/bitstreams/0485863d-267e-4cd8-8eb8-8ea263b0bdd6/download","source":{"id":"https://openalex.org/S4306400753","display_name":"Deposito Academico Digital Universidad De Navarra (Universidad De Navarra)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210135003","host_organization_name":"Clinica Universidad de Navarra","host_organization_lineage":["https://openalex.org/I4210135003"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw747","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw747","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/7/1040/25149882/btw747.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":[],"funders":[{"id":"https://openalex.org/F4320337415","display_name":"Janssen Research and Development","ror":"https://ror.org/03qd7mz70"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2576119444.pdf","grobid_xml":"https://content.openalex.org/works/W2576119444.grobid-xml"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W134271320","https://openalex.org/W191102129","https://openalex.org/W269412571","https://openalex.org/W1580954430","https://openalex.org/W1611935467","https://openalex.org/W1935211192","https://openalex.org/W1968519358","https://openalex.org/W1970580273","https://openalex.org/W1971144865","https://openalex.org/W1971224531","https://openalex.org/W1981898075","https://openalex.org/W1994877332","https://openalex.org/W2000982470","https://openalex.org/W2004073264","https://openalex.org/W2005486846","https://openalex.org/W2015796769","https://openalex.org/W2024144792","https://openalex.org/W2024345822","https://openalex.org/W2042431901","https://openalex.org/W2053961182","https://openalex.org/W2076528243","https://openalex.org/W2090020814","https://openalex.org/W2103454055","https://openalex.org/W2103723044","https://openalex.org/W2107062718","https://openalex.org/W2108020239","https://openalex.org/W2109477330","https://openalex.org/W2116390317","https://openalex.org/W2119375092","https://openalex.org/W2124082948","https://openalex.org/W2124757426","https://openalex.org/W2128088446","https://openalex.org/W2129325583","https://openalex.org/W2146272590","https://openalex.org/W2157573465","https://openalex.org/W2158293950","https://openalex.org/W2159130719","https://openalex.org/W2167437179","https://openalex.org/W2170103858","https://openalex.org/W2171428576","https://openalex.org/W2279678576","https://openalex.org/W2322145884","https://openalex.org/W2913066018","https://openalex.org/W3101174921","https://openalex.org/W4252521233","https://openalex.org/W4388252848","https://openalex.org/W6607694786","https://openalex.org/W6661229172"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"Motivation:":[0],"Literature":[1],"on":[2],"complex":[3],"diseases":[4,121],"is":[5,138],"abundant":[6],"but":[7,18,49],"not":[8,51],"always":[9],"quantitative.":[10],"Many":[11],"molecular":[12],"pathways":[13],"are":[14,39,151],"qualitatively":[15],"well":[16],"described":[17],"this":[19,79],"information":[20,45],"cannot":[21],"be":[22,110],"used":[23,111],"in":[24,30,46],"traditional":[25],"quantitative":[26],"mathematical":[27],"models":[28,108],"employed":[29],"drug":[31],"development.":[32],"Tools":[33],"for":[34,98],"analysis":[35,66],"of":[36,63,67,74,89,116],"discrete":[37,68],"networks":[38,69,92,118],"useful":[40],"to":[41,85,112,120,122],"capture":[42],"the":[43,47,56,64,72,114,124],"available":[44,139,152],"literature":[48],"have":[50],"been":[52],"efficiently":[53],"integrated":[54],"by":[55,93],"pharmaceutical":[57],"industry.":[58],"We":[59],"propose":[60,82],"an":[61],"expansion":[62],"usual":[65],"that":[70],"facilitates":[71],"identification/validation":[73],"therapeutic":[75,130],"targets.":[76,131],"Results:":[77],"In":[78],"article,":[80],"we":[81],"a":[83],"methodology":[84],"perform":[86],"Boolean":[87],"modeling":[88],"Systems":[90],"Biology/Pharmacology":[91],"using":[94],"SPIDDOR":[95],"(Systems":[96],"Pharmacology":[97],"effIcient":[99],"Drug":[100],"Development":[101],"On":[102],"R)":[103],"R":[104],"package.":[105],"The":[106,135],"resulting":[107],"can":[109],"analyze":[113],"dynamics":[115],"signaling":[117],"associated":[119],"predict":[123],"pathogenesis":[125],"mechanisms":[126],"and":[127,133],"identify":[128],"potential":[129],"Availability":[132],"Implementation:":[134],"source":[136],"code":[137],"at":[140,153],"https://github.com/SPIDDOR/SPIDDOR":[141],".":[142],"Contact:":[143],"itzirurzun@alumni.unav.es":[144],",":[145],"itroconiz@unav.es.":[146],"Supplementary":[147,149],"information:":[148],"data":[150],"Bioinformatics":[154],"online.":[155]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":2}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}
