{"id":"https://openalex.org/W2601269785","doi":"https://doi.org/10.1109/cec.2017.7969320","title":"Investigating IKK dynamics in the NF-\u03baB signalling pathway using X-Machines","display_name":"Investigating IKK dynamics in the NF-\u03baB signalling pathway using X-Machines","publication_year":2017,"publication_date":"2017-06-01","ids":{"openalex":"https://openalex.org/W2601269785","doi":"https://doi.org/10.1109/cec.2017.7969320","mag":"2601269785"},"language":"en","primary_location":{"id":"doi:10.1109/cec.2017.7969320","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cec.2017.7969320","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2017 IEEE Congress on Evolutionary Computation (CEC)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://eprints.lancs.ac.uk/id/eprint/85205/1/PID4690973.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5072139660","display_name":"Richard A. Williams","orcid":"https://orcid.org/0000-0001-6333-9448"},"institutions":[{"id":"https://openalex.org/I67415387","display_name":"Lancaster University","ror":"https://ror.org/04f2nsd36","country_code":"GB","type":"education","lineage":["https://openalex.org/I67415387"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Richard A. Williams","raw_affiliation_strings":["Department of Management Science, Lancaster University, Lancaster, UK"],"affiliations":[{"raw_affiliation_string":"Department of Management Science, Lancaster University, Lancaster, UK","institution_ids":["https://openalex.org/I67415387"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080582720","display_name":"Jon Timmis","orcid":"https://orcid.org/0000-0003-1055-0471"},"institutions":[{"id":"https://openalex.org/I52099693","display_name":"University of York","ror":"https://ror.org/04m01e293","country_code":"GB","type":"education","lineage":["https://openalex.org/I52099693"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Jon Timmis","raw_affiliation_strings":["York Computational Immunology Laboratory, University of York, York, UK"],"affiliations":[{"raw_affiliation_string":"York Computational Immunology Laboratory, University of York, York, UK","institution_ids":["https://openalex.org/I52099693"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072449375","display_name":"Eva E. Qwarnstr\u00f6m","orcid":"https://orcid.org/0000-0003-4417-8663"},"institutions":[{"id":"https://openalex.org/I91136226","display_name":"University of Sheffield","ror":"https://ror.org/05krs5044","country_code":"GB","type":"education","lineage":["https://openalex.org/I91136226"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Eva E. Qwarnstrom","raw_affiliation_strings":["Department of Infection, Immunity and Cardiovascular Disease, University of Sheffield, Sheffield, UK"],"affiliations":[{"raw_affiliation_string":"Department of Infection, Immunity and Cardiovascular Disease, University of Sheffield, Sheffield, UK","institution_ids":["https://openalex.org/I91136226"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5072139660"],"corresponding_institution_ids":["https://openalex.org/I67415387"],"apc_list":null,"apc_paid":null,"fwci":0.2672,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.53643249,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"12","issue":null,"first_page":"249","last_page":"256"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11591","display_name":"NF-\u03baB Signaling Pathways","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11591","display_name":"NF-\u03baB Signaling Pathways","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10371","display_name":"Immune Response and Inflammation","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11668","display_name":"interferon and immune responses","score":0.9976999759674072,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.7076385617256165},{"id":"https://openalex.org/keywords/signalling","display_name":"Signalling","score":0.6230852603912354},{"id":"https://openalex.org/keywords/innate-immune-system","display_name":"Innate immune system","score":0.6081089377403259},{"id":"https://openalex.org/keywords/i\u03bab-kinase","display_name":"I\u03baB kinase","score":0.6043093204498291},{"id":"https://openalex.org/keywords/nf-\u03bab","display_name":"NF-\u03baB","score":0.5930728912353516},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.5845203995704651},{"id":"https://openalex.org/keywords/effector","display_name":"Effector","score":0.5183033347129822},{"id":"https://openalex.org/keywords/signal-transduction","display_name":"Signal transduction","score":0.499178409576416},{"id":"https://openalex.org/keywords/hedgehog-signaling-pathway","display_name":"Hedgehog signaling pathway","score":0.4208429455757141},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.40715038776397705},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.39674270153045654},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3958072364330292},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.37188369035720825},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.23698633909225464},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.20132258534431458},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.17183756828308105},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.1223844587802887}],"concepts":[{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.7076385617256165},{"id":"https://openalex.org/C39743133","wikidata":"https://www.wikidata.org/wiki/Q3262595","display_name":"Signalling","level":2,"score":0.6230852603912354},{"id":"https://openalex.org/C136449434","wikidata":"https://www.wikidata.org/wiki/Q428253","display_name":"Innate immune system","level":3,"score":0.6081089377403259},{"id":"https://openalex.org/C100175707","wikidata":"https://www.wikidata.org/wiki/Q6103519","display_name":"I\u03baB kinase","level":4,"score":0.6043093204498291},{"id":"https://openalex.org/C2777730290","wikidata":"https://www.wikidata.org/wiki/Q411114","display_name":"NF-\u03baB","level":3,"score":0.5930728912353516},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.5845203995704651},{"id":"https://openalex.org/C51785407","wikidata":"https://www.wikidata.org/wiki/Q2627568","display_name":"Effector","level":2,"score":0.5183033347129822},{"id":"https://openalex.org/C62478195","wikidata":"https://www.wikidata.org/wiki/Q828130","display_name":"Signal transduction","level":2,"score":0.499178409576416},{"id":"https://openalex.org/C88498014","wikidata":"https://www.wikidata.org/wiki/Q14859918","display_name":"Hedgehog signaling pathway","level":3,"score":0.4208429455757141},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.40715038776397705},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.39674270153045654},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3958072364330292},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.37188369035720825},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.23698633909225464},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.20132258534431458},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.17183756828308105},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.1223844587802887}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1109/cec.2017.7969320","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cec.2017.7969320","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2017 IEEE Congress on Evolutionary Computation (CEC)","raw_type":"proceedings-article"},{"id":"pmh:oai:eprints.lancs.ac.uk:85205","is_oa":true,"landing_page_url":null,"pdf_url":"https://eprints.lancs.ac.uk/id/eprint/85205/1/PID4690973.pdf","source":{"id":"https://openalex.org/S4306401916","display_name":"Lancaster EPrints (Lancaster University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67415387","host_organization_name":"Lancaster University","host_organization_lineage":["https://openalex.org/I67415387"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"PeerReviewed"},{"id":"pmh:oai:eprints.whiterose.ac.uk:119212","is_oa":false,"landing_page_url":"http://eprints.whiterose.ac.uk/119212/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400854","display_name":"White Rose Research Online (University of Leeds, The University of Sheffield, University of York)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2800616092","host_organization_name":"White Rose University Consortium","host_organization_lineage":["https://openalex.org/I2800616092"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":{"id":"pmh:oai:eprints.lancs.ac.uk:85205","is_oa":true,"landing_page_url":null,"pdf_url":"https://eprints.lancs.ac.uk/id/eprint/85205/1/PID4690973.pdf","source":{"id":"https://openalex.org/S4306401916","display_name":"Lancaster EPrints (Lancaster University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67415387","host_organization_name":"Lancaster University","host_organization_lineage":["https://openalex.org/I67415387"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"PeerReviewed"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G4044129774","display_name":null,"funder_award_id":"BB/J009687/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G4707214267","display_name":null,"funder_award_id":"EP/K040820/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2601269785.pdf"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W78369961","https://openalex.org/W97692387","https://openalex.org/W132221605","https://openalex.org/W134816542","https://openalex.org/W173128540","https://openalex.org/W1480466711","https://openalex.org/W1501881225","https://openalex.org/W1535481092","https://openalex.org/W1605831037","https://openalex.org/W1641228030","https://openalex.org/W1778150298","https://openalex.org/W1969501356","https://openalex.org/W1972503034","https://openalex.org/W1972559261","https://openalex.org/W1978279802","https://openalex.org/W1979034309","https://openalex.org/W1979171839","https://openalex.org/W1987227366","https://openalex.org/W2005453221","https://openalex.org/W2015926834","https://openalex.org/W2023877008","https://openalex.org/W2029157767","https://openalex.org/W2038890616","https://openalex.org/W2042832398","https://openalex.org/W2062205148","https://openalex.org/W2064558057","https://openalex.org/W2070853191","https://openalex.org/W2081880634","https://openalex.org/W2088469845","https://openalex.org/W2090255520","https://openalex.org/W2092460415","https://openalex.org/W2095833996","https://openalex.org/W2106877484","https://openalex.org/W2115047693","https://openalex.org/W2120123805","https://openalex.org/W2128108907","https://openalex.org/W2129319296","https://openalex.org/W2159979956","https://openalex.org/W2169053713","https://openalex.org/W2470223656","https://openalex.org/W2507732467","https://openalex.org/W2999065750","https://openalex.org/W4246077736","https://openalex.org/W4251988601","https://openalex.org/W4255375128","https://openalex.org/W4300115468","https://openalex.org/W6605381825","https://openalex.org/W6844851099"],"related_works":["https://openalex.org/W2102030350","https://openalex.org/W2552495559","https://openalex.org/W4253354843","https://openalex.org/W2565946308","https://openalex.org/W2743272905","https://openalex.org/W4401019025","https://openalex.org/W1588163428","https://openalex.org/W2034968362","https://openalex.org/W4392844681","https://openalex.org/W1607737341"],"abstract_inverted_index":{"The":[0],"transcription":[1],"factor":[2],"NF-\u03baB":[3,67,83],"is":[4,9,26,151],"a":[5,32,54,119],"biological":[6],"component":[7],"that":[8,148],"central":[10],"to":[11,28,56,90,161],"the":[12,18,24,58,64,80,94,110,133,136,149,156,162,169],"regulation":[13],"of":[14,23,35,66,70,79,109,135,142,159,173],"genes":[15],"involved":[16,30],"in":[17,31,47,53,118,123,155,168],"innate":[19],"immune":[20],"system.":[21],"Dysregulation":[22],"pathway":[25,150],"known":[27],"be":[29,116],"large":[33],"number":[34],"inflammatory":[36,71],"diseases.":[37,72],"Although":[38],"considerable":[39],"research":[40],"has":[41,87],"been":[42,88],"performed":[43],"since":[44],"its":[45,140],"discovery":[46],"1986,":[48],"we":[49,101,129],"are":[50],"still":[51],"not":[52],"position":[55],"control":[57],"signalling":[59,84],"pathway,":[60,85],"and":[61,114,139,166],"thus":[62],"limit":[63],"effects":[65],"within":[68],"promotion":[69],"We":[73],"have":[74,130],"developed":[75],"an":[76,106],"agent-based":[77,145],"model":[78,104,146],"IL-1":[81],"stimulated":[82],"which":[86],"calibrated":[89],"wet-lab":[91],"data":[92],"at":[93],"single-cell":[95],"level.":[96],"Through":[97],"rigorous":[98],"software":[99],"engineering,":[100],"believe":[102],"our":[103],"provides":[105],"abstracted":[107],"view":[108],"underlying":[111],"real-world":[112],"system,":[113],"can":[115],"used":[117],"predictive":[120],"capacity":[121],"through":[122],"silico":[124],"experimentation.":[125],"In":[126],"this":[127],"study,":[128],"focused":[131],"on":[132],"dynamics":[134],"IKK":[137,160],"complex":[138],"activation":[141],"NF-\u03baB.":[143],"Our":[144],"suggests":[147],"sensitive":[152],"to:":[153],"variations":[154,167],"binding":[157],"probability":[158],"inhibited":[163],"NF-\u03baB-I\u03baB\u03b1":[164],"complex;":[165],"temporal":[170],"rebinding":[171],"delay":[172],"IKK.":[174]},"counts_by_year":[{"year":2020,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}