{"id":"https://openalex.org/W2899438138","doi":"https://doi.org/10.1016/j.biosystems.2018.07.002","title":"A general framework dedicated to computational morphogenesis Part II \u2013 Knowledge representation and architecture","display_name":"A general framework dedicated to computational morphogenesis Part II \u2013 Knowledge representation and architecture","publication_year":2018,"publication_date":"2018-11-01","ids":{"openalex":"https://openalex.org/W2899438138","doi":"https://doi.org/10.1016/j.biosystems.2018.07.002","mag":"2899438138","pmid":"https://pubmed.ncbi.nlm.nih.gov/30009873"},"language":"en","primary_location":{"id":"doi:10.1016/j.biosystems.2018.07.002","is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.biosystems.2018.07.002","pdf_url":null,"source":{"id":"https://openalex.org/S99347777","display_name":"Biosystems","issn_l":"0303-2647","issn":["0303-2647","1872-8324"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biosystems","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110562719","display_name":"Pridi Siregar","orcid":null},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Pridi Siregar","raw_affiliation_strings":["Integrative BioComputing - IBC, Chantepie, France. Electronic address: pridi.siregar@ibiocomputing.com","Integrative BioComputing - IBC, Chantepie, France"],"affiliations":[{"raw_affiliation_string":"Integrative BioComputing - IBC, Chantepie, France. Electronic address: pridi.siregar@ibiocomputing.com","institution_ids":[]},{"raw_affiliation_string":"Integrative BioComputing - IBC, Chantepie, France","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021223909","display_name":"Nathalie Julen","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Nathalie Julen","raw_affiliation_strings":["Integrative BioComputing - IBC, Chantepie, France"],"affiliations":[{"raw_affiliation_string":"Integrative BioComputing - IBC, Chantepie, France","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075439494","display_name":"Peter Hufnagl","orcid":"https://orcid.org/0000-0001-6810-586X"},"institutions":[{"id":"https://openalex.org/I7877124","display_name":"Charit\u00e9 - Universit\u00e4tsmedizin Berlin","ror":"https://ror.org/001w7jn25","country_code":"DE","type":"funder","lineage":["https://openalex.org/I7877124"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Peter Hufnagl","raw_affiliation_strings":["Department of Digital Pathology and IT, Institute of Pathology, Charit\u00e9 - Universit\u00e4tsmedizin Berlin, Berlin, Germany","Department of Digital Pathology and IT, Institute of Pathology, Charit\u00e9 \u2013 Universit\u00e4tsmedizin Berlin, Berlin, Germany"],"affiliations":[{"raw_affiliation_string":"Department of Digital Pathology and IT, Institute of Pathology, Charit\u00e9 - Universit\u00e4tsmedizin Berlin, Berlin, Germany","institution_ids":[]},{"raw_affiliation_string":"Department of Digital Pathology and IT, Institute of Pathology, Charit\u00e9 \u2013 Universit\u00e4tsmedizin Berlin, Berlin, Germany","institution_ids":["https://openalex.org/I7877124"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021618100","display_name":"George L. Mutter","orcid":"https://orcid.org/0000-0002-9795-8156"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I1283280774","display_name":"Brigham and Women's Hospital","ror":"https://ror.org/04b6nzv94","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1283280774","https://openalex.org/I48633490"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"George Mutter","raw_affiliation_strings":["Department of Pathology, Harvard Medical School and Brigham and Women's Hospital, Boston, MA, USA","Department of Pathology, Harvard Medical School and Brigham and Women\u2019s Hospital, Boston, MA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Pathology, Harvard Medical School and Brigham and Women's Hospital, Boston, MA, USA","institution_ids":["https://openalex.org/I1283280774","https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Pathology, Harvard Medical School and Brigham and Women\u2019s Hospital, Boston, MA, USA","institution_ids":["https://openalex.org/I1283280774","https://openalex.org/I136199984"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5110562719"],"corresponding_institution_ids":[],"apc_list":{"value":2700,"currency":"USD","value_usd":2700},"apc_paid":null,"fwci":0.3375,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.69557403,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"173","issue":null,"first_page":"314","last_page":"334"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13062","display_name":"Cognitive Computing and Networks","score":0.9901000261306763,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T13062","display_name":"Cognitive Computing and Networks","score":0.9901000261306763,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T12805","display_name":"Cognitive Science and Mapping","score":0.9746000170707703,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.972100019454956,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6927217245101929},{"id":"https://openalex.org/keywords/morphogenesis","display_name":"Morphogenesis","score":0.6887064576148987},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.6475333571434021},{"id":"https://openalex.org/keywords/architecture","display_name":"Architecture","score":0.5795721411705017},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.4027253985404968},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3749849200248718},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20258980989456177},{"id":"https://openalex.org/keywords/geography","display_name":"Geography","score":0.06071475148200989}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6927217245101929},{"id":"https://openalex.org/C40692019","wikidata":"https://www.wikidata.org/wiki/Q815547","display_name":"Morphogenesis","level":3,"score":0.6887064576148987},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.6475333571434021},{"id":"https://openalex.org/C123657996","wikidata":"https://www.wikidata.org/wiki/Q12271","display_name":"Architecture","level":2,"score":0.5795721411705017},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.4027253985404968},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3749849200248718},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20258980989456177},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.06071475148200989},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001703","descriptor_name":"Biophysics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001703","descriptor_name":"Biophysics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001703","descriptor_name":"Biophysics","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":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009024","descriptor_name":"Morphogenesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009024","descriptor_name":"Morphogenesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009024","descriptor_name":"Morphogenesis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013598","descriptor_name":"Systems Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013598","descriptor_name":"Systems Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013598","descriptor_name":"Systems Theory","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015509","descriptor_name":"Developmental Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D015509","descriptor_name":"Developmental Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D015509","descriptor_name":"Developmental 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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019359","descriptor_name":"Knowledge","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019359","descriptor_name":"Knowledge","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019359","descriptor_name":"Knowledge","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1016/j.biosystems.2018.07.002","is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.biosystems.2018.07.002","pdf_url":null,"source":{"id":"https://openalex.org/S99347777","display_name":"Biosystems","issn_l":"0303-2647","issn":["0303-2647","1872-8324"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Biosystems","raw_type":"journal-article"},{"id":"pmid:30009873","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30009873","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":"Bio Systems","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/11","score":0.5699999928474426,"display_name":"Sustainable cities and communities"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":118,"referenced_works":["https://openalex.org/W87451397","https://openalex.org/W140663229","https://openalex.org/W163618961","https://openalex.org/W204998232","https://openalex.org/W564273710","https://openalex.org/W625813860","https://openalex.org/W643863419","https://openalex.org/W972249351","https://openalex.org/W1483568252","https://openalex.org/W1484949263","https://openalex.org/W1487395029","https://openalex.org/W1499677744","https://openalex.org/W1527571715","https://openalex.org/W1534461957","https://openalex.org/W1569339351","https://openalex.org/W1589854289","https://openalex.org/W1598515570","https://openalex.org/W1783575152","https://openalex.org/W1791037351","https://openalex.org/W1836367264","https://openalex.org/W1871668702","https://openalex.org/W1882651189","https://openalex.org/W1934353367","https://openalex.org/W1940974336","https://openalex.org/W1965996323","https://openalex.org/W1974272479","https://openalex.org/W1980080444","https://openalex.org/W1988671884","https://openalex.org/W1993595804","https://openalex.org/W1996347293","https://openalex.org/W1999790954","https://openalex.org/W2000385668","https://openalex.org/W2011339979","https://openalex.org/W2012170877","https://openalex.org/W2013304036","https://openalex.org/W2017009230","https://openalex.org/W2018097434","https://openalex.org/W2021564806","https://openalex.org/W2022734461","https://openalex.org/W2024030426","https://openalex.org/W2042321087","https://openalex.org/W2053190303","https://openalex.org/W2065360142","https://openalex.org/W2066676451","https://openalex.org/W2067145053","https://openalex.org/W2073984231","https://openalex.org/W2076582569","https://openalex.org/W2084176144","https://openalex.org/W2089664538","https://openalex.org/W2093140661","https://openalex.org/W2093498795","https://openalex.org/W2093905028","https://openalex.org/W2097186104","https://openalex.org/W2103017472","https://openalex.org/W2103934527","https://openalex.org/W2104351678","https://openalex.org/W2107433900","https://openalex.org/W2107475155","https://openalex.org/W2109472209","https://openalex.org/W2127480960","https://openalex.org/W2129375080","https://openalex.org/W2133039566","https://openalex.org/W2141088850","https://openalex.org/W2143117649","https://openalex.org/W2151659911","https://openalex.org/W2154287377","https://openalex.org/W2161484642","https://openalex.org/W2226666279","https://openalex.org/W2243132409","https://openalex.org/W2256103426","https://openalex.org/W2336980017","https://openalex.org/W2412677651","https://openalex.org/W2468014659","https://openalex.org/W2483974599","https://openalex.org/W2484031233","https://openalex.org/W2501318248","https://openalex.org/W2549692874","https://openalex.org/W2576799546","https://openalex.org/W2584972048","https://openalex.org/W2585344729","https://openalex.org/W2589032116","https://openalex.org/W2613163159","https://openalex.org/W2622459788","https://openalex.org/W2747723876","https://openalex.org/W2764674006","https://openalex.org/W2774024251","https://openalex.org/W2784122895","https://openalex.org/W2807076632","https://openalex.org/W2823191871","https://openalex.org/W2919115771","https://openalex.org/W2963095307","https://openalex.org/W3026354358","https://openalex.org/W3032363870","https://openalex.org/W3034754076","https://openalex.org/W3128780189","https://openalex.org/W4230368357","https://openalex.org/W4235051201","https://openalex.org/W4235813374","https://openalex.org/W4246739026","https://openalex.org/W4293186481","https://openalex.org/W4301810058","https://openalex.org/W4404342747","https://openalex.org/W6606723169","https://openalex.org/W6628902395","https://openalex.org/W6635924541","https://openalex.org/W6638701661","https://openalex.org/W6639430512","https://openalex.org/W6639675744","https://openalex.org/W6640575599","https://openalex.org/W6682638268","https://openalex.org/W6724075756","https://openalex.org/W6729417641","https://openalex.org/W6733928209","https://openalex.org/W6737527249","https://openalex.org/W6738748710","https://openalex.org/W6753113391","https://openalex.org/W6893686472","https://openalex.org/W7074611585"],"related_works":["https://openalex.org/W2001312180","https://openalex.org/W2468936369","https://openalex.org/W4246868616","https://openalex.org/W2418452667","https://openalex.org/W3008888037","https://openalex.org/W2026277664","https://openalex.org/W101727737","https://openalex.org/W3000656986","https://openalex.org/W2437254429","https://openalex.org/W4323295512"],"abstract_inverted_index":null,"counts_by_year":[{"year":2022,"cited_by_count":3},{"year":2018,"cited_by_count":2}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}