{"id":"https://openalex.org/W2104437669","doi":"https://doi.org/10.1093/bioinformatics/btt523","title":"A simulator for spatially extended kappa models","display_name":"A simulator for spatially extended kappa models","publication_year":2013,"publication_date":"2013-09-09","ids":{"openalex":"https://openalex.org/W2104437669","doi":"https://doi.org/10.1093/bioinformatics/btt523","mag":"2104437669","pmid":"https://pubmed.ncbi.nlm.nih.gov/24021382"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt523","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt523","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/23/3105/48897725/bioinformatics_29_23_3105.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/29/23/3105/48897725/bioinformatics_29_23_3105.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5066754980","display_name":"Oksana Sorokina","orcid":"https://orcid.org/0000-0002-6786-9945"},"institutions":[{"id":"https://openalex.org/I4210155801","display_name":"Institute of Cell Biophysics","ror":"https://ror.org/05gbnpz65","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210129690","https://openalex.org/I4210155801"]},{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB","RU"],"is_corresponding":true,"raw_author_name":"Oksana Sorokina","raw_affiliation_strings":["1 School of Informatics, University of Edinburgh, Edinburgh, UK and 2Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino 142290, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Informatics, University of Edinburgh, Edinburgh, UK and 2Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino 142290, Russia","institution_ids":["https://openalex.org/I4210155801","https://openalex.org/I98677209"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020746275","display_name":"Anatoly Sorokin","orcid":"https://orcid.org/0000-0002-0047-0606"},"institutions":[{"id":"https://openalex.org/I4210155801","display_name":"Institute of Cell Biophysics","ror":"https://ror.org/05gbnpz65","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210129690","https://openalex.org/I4210155801"]},{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB","RU"],"is_corresponding":false,"raw_author_name":"Anatoly Sorokin","raw_affiliation_strings":["1 School of Informatics, University of Edinburgh, Edinburgh, UK and 2Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino 142290, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Informatics, University of Edinburgh, Edinburgh, UK and 2Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino 142290, Russia","institution_ids":["https://openalex.org/I4210155801","https://openalex.org/I98677209"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026384936","display_name":"J. Douglas Armstrong","orcid":"https://orcid.org/0000-0002-5397-3864"},"institutions":[{"id":"https://openalex.org/I4210155801","display_name":"Institute of Cell Biophysics","ror":"https://ror.org/05gbnpz65","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210129690","https://openalex.org/I4210155801"]},{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["GB","RU"],"is_corresponding":false,"raw_author_name":"J. Douglas Armstrong","raw_affiliation_strings":["1 School of Informatics, University of Edinburgh, Edinburgh, UK and 2Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino 142290, Russia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Informatics, University of Edinburgh, Edinburgh, UK and 2Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino 142290, Russia","institution_ids":["https://openalex.org/I4210155801","https://openalex.org/I98677209"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111482850","display_name":"Vincent Danos","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210155801","display_name":"Institute of Cell Biophysics","ror":"https://ror.org/05gbnpz65","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210129690","https://openalex.org/I4210155801"]},{"id":"https://openalex.org/I98677209","display_name":"University of Edinburgh","ror":"https://ror.org/01nrxwf90","country_code":"GB","type":"education","lineage":["https://openalex.org/I98677209"]}],"countries":["FR","GB","RU"],"is_corresponding":false,"raw_author_name":"Vincent Danos","raw_affiliation_strings":["1 School of Informatics, University of Edinburgh, Edinburgh, UK and 2Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino 142290, Russia","CNRS - Centre National de la Recherche Scientifique (France)"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 School of Informatics, University of Edinburgh, Edinburgh, UK and 2Institute of Cell Biophysics, Russian Academy of Sciences, Pushchino 142290, Russia","institution_ids":["https://openalex.org/I4210155801","https://openalex.org/I98677209"]},{"raw_affiliation_string":"CNRS - Centre National de la Recherche Scientifique (France)","institution_ids":["https://openalex.org/I1294671590"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5066754980"],"corresponding_institution_ids":["https://openalex.org/I4210155801","https://openalex.org/I98677209"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.7375,"has_fulltext":true,"cited_by_count":20,"citation_normalized_percentile":{"value":0.7177059,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"29","issue":"23","first_page":"3105","last_page":"3106"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9987000226974487,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9987000226974487,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9983999729156494,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9926000237464905,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/kappa","display_name":"Kappa","score":0.788146436214447},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7637466192245483},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.7474237680435181},{"id":"https://openalex.org/keywords/open-source","display_name":"Open source","score":0.6426804065704346},{"id":"https://openalex.org/keywords/cohens-kappa","display_name":"Cohen's kappa","score":0.556544303894043},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.4673350751399994},{"id":"https://openalex.org/keywords/simulation","display_name":"Simulation","score":0.4118342101573944},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3852023482322693},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.379589706659317},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.185405433177948},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.07167580723762512}],"concepts":[{"id":"https://openalex.org/C2778724333","wikidata":"https://www.wikidata.org/wiki/Q14401","display_name":"Kappa","level":2,"score":0.788146436214447},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7637466192245483},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.7474237680435181},{"id":"https://openalex.org/C3018397939","wikidata":"https://www.wikidata.org/wiki/Q3644502","display_name":"Open source","level":3,"score":0.6426804065704346},{"id":"https://openalex.org/C163864269","wikidata":"https://www.wikidata.org/wiki/Q1107106","display_name":"Cohen's kappa","level":2,"score":0.556544303894043},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.4673350751399994},{"id":"https://openalex.org/C44154836","wikidata":"https://www.wikidata.org/wiki/Q45045","display_name":"Simulation","level":1,"score":0.4118342101573944},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3852023482322693},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.379589706659317},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.185405433177948},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.07167580723762512},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004058","descriptor_name":"Diffusion","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008962","descriptor_name":"Models, Theoretical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013570","descriptor_name":"Synaptic Membranes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013570","descriptor_name":"Synaptic Membranes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013570","descriptor_name":"Synaptic Membranes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D013570","descriptor_name":"Synaptic Membranes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018091","descriptor_name":"Receptors, AMPA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018091","descriptor_name":"Receptors, AMPA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018091","descriptor_name":"Receptors, AMPA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018091","descriptor_name":"Receptors, AMPA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1093/bioinformatics/btt523","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt523","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/23/3105/48897725/bioinformatics_29_23_3105.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24021382","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24021382","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:HAL:hal-01976409v1","is_oa":true,"landing_page_url":"https://hal.science/hal-01976409","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"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, 2013, 29 (23), pp.3105-3106. ⟨10.1093/bioinformatics/btt523⟩","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:2821378","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3834793","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pure.ed.ac.uk:ec_fundedresources/8e7ed1c1-b325-454b-b4bb-a4ec91e77cd2","is_oa":true,"landing_page_url":"https://www.research.ed.ac.uk/portal/en/publications/a-simulator-for-spatially-extended-kappa-models(8e7ed1c1-b325-454b-b4bb-a4ec91e77cd2).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306400321","display_name":"Edinburgh Research Explorer (University of Edinburgh)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I98677209","host_organization_name":"University of Edinburgh","host_organization_lineage":["https://openalex.org/I98677209"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":""},{"id":"pmh:oai:pure.ed.ac.uk:openaire/8e7ed1c1-b325-454b-b4bb-a4ec91e77cd2","is_oa":true,"landing_page_url":"https://hdl.handle.net/20.500.11820/8e7ed1c1-b325-454b-b4bb-a4ec91e77cd2","pdf_url":null,"source":{"id":"https://openalex.org/S4306400321","display_name":"Edinburgh Research Explorer (University of Edinburgh)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I98677209","host_organization_name":"University of Edinburgh","host_organization_lineage":["https://openalex.org/I98677209"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Sorokina, O, Sorokin, A, Armstrong, D & Danos, V 2013, 'A simulator for spatially extended kappa models', Bioinformatics, vol. 29, no. 23, pp. 3105-3106. https://doi.org/10.1093/bioinformatics/btt523","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:pure.ed.ac.uk:publications/8e7ed1c1-b325-454b-b4bb-a4ec91e77cd2","is_oa":true,"landing_page_url":"https://www.research.ed.ac.uk/en/publications/8e7ed1c1-b325-454b-b4bb-a4ec91e77cd2","pdf_url":null,"source":{"id":"https://openalex.org/S4306400321","display_name":"Edinburgh Research Explorer (University of Edinburgh)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I98677209","host_organization_name":"University of Edinburgh","host_organization_lineage":["https://openalex.org/I98677209"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Sorokina, O, Sorokin, A, Armstrong, D & Danos, V 2013, 'A simulator for spatially extended kappa models', Bioinformatics, vol. 29, no. 23, pp. 3105-3106. https://doi.org/10.1093/bioinformatics/btt523","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btt523","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt523","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/23/3105/48897725/bioinformatics_29_23_3105.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","score":0.44999998807907104,"display_name":"Partnerships for the goals"}],"awards":[{"id":"https://openalex.org/G2160003213","display_name":null,"funder_award_id":"BB/D019621/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G2425203025","display_name":null,"funder_award_id":"BB/D019621/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"},{"id":"https://openalex.org/G922893353","display_name":"Centre for Systems Biology at Edinburgh","funder_award_id":"BB/D019621/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320332167","display_name":"Directorate for Biological Sciences","ror":"https://ror.org/001xhss06"},{"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":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2104437669.pdf","grobid_xml":"https://content.openalex.org/works/W2104437669.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1486452837","https://openalex.org/W1515942843","https://openalex.org/W1528643580","https://openalex.org/W1892851289","https://openalex.org/W1987069566","https://openalex.org/W2017260253","https://openalex.org/W2022178479","https://openalex.org/W2047089074","https://openalex.org/W2078734278","https://openalex.org/W2123256390","https://openalex.org/W2155418451","https://openalex.org/W2729071233","https://openalex.org/W4254777883","https://openalex.org/W6630538123","https://openalex.org/W6662318949","https://openalex.org/W6678391531"],"related_works":["https://openalex.org/W1967594194","https://openalex.org/W1444168786","https://openalex.org/W2294084971","https://openalex.org/W2148964467","https://openalex.org/W2281321759","https://openalex.org/W2474048269","https://openalex.org/W2792864698","https://openalex.org/W1966976587","https://openalex.org/W2292870489","https://openalex.org/W4294214983"],"abstract_inverted_index":{"Abstract":[0],"Summary:":[1],"Spatial":[2],"Kappa":[3],"is":[4,28],"a":[5,11],"simulator":[6,27],"of":[7,13],"models":[8],"written":[9],"in":[10],"variant":[12],"the":[14,34],"rule-based":[15],"stochastic":[16],"modelling":[17],"language":[18],"Kappa,":[19],"with":[20,36],"spatial":[21,25],"extensions.":[22],"Availability:":[23],"The":[24],"kappa":[26],"an":[29],"open-source":[30],"project":[31],"licensed":[32],"under":[33],"LGPLv3,":[35],"Java":[37],"source,":[38],"binaries":[39],"and":[40],"manual":[41],"available":[42,52],"at":[43,53],"http://github.com/lptolik/SpatialKappa.":[44],"Contact:":[45],"oksana.sorokina@ed.ac.uk":[46],"Supplementary":[47,49],"information:":[48],"data":[50],"are":[51],"Bioinformatics":[54],"online.":[55]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2}],"updated_date":"2026-06-23T06:36:01.041984","created_date":"2025-10-10T00:00:00"}