{"id":"https://openalex.org/W3015015661","doi":"https://doi.org/10.1515/jib-2019-0070","title":"A Lock Free Approach To Parallelize The Cellular Potts Model: Application To Ductal Carcinoma In Situ","display_name":"A Lock Free Approach To Parallelize The Cellular Potts Model: Application To Ductal Carcinoma In Situ","publication_year":2020,"publication_date":"2020-03-01","ids":{"openalex":"https://openalex.org/W3015015661","doi":"https://doi.org/10.1515/jib-2019-0070","mag":"3015015661","pmid":"https://pubmed.ncbi.nlm.nih.gov/32267247"},"language":"en","primary_location":{"id":"doi:10.1515/jib-2019-0070","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2019-0070","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2019-0070/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://www.degruyter.com/document/doi/10.1515/jib-2019-0070/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010845295","display_name":"Antonio J. Tomeu","orcid":"https://orcid.org/0000-0003-4380-9785"},"institutions":[{"id":"https://openalex.org/I39147953","display_name":"Universidad de C\u00e1diz","ror":"https://ror.org/04mxxkb11","country_code":"ES","type":"education","lineage":["https://openalex.org/I39147953"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Antonio J. Tomeu","raw_affiliation_strings":["University of Cadiz, Computer Science , Escuela Superior de Ingenier\u00eda , Campus of Puerto Real Puerto Real , Spain","University of Cadiz, Faculty of Engineering, Department of Computer Science , Puerto Real , Spain"],"raw_orcid":"https://orcid.org/0000-0003-4380-9785","affiliations":[{"raw_affiliation_string":"University of Cadiz, Computer Science , Escuela Superior de Ingenier\u00eda , Campus of Puerto Real Puerto Real , Spain","institution_ids":["https://openalex.org/I39147953"]},{"raw_affiliation_string":"University of Cadiz, Faculty of Engineering, Department of Computer Science , Puerto Real , Spain","institution_ids":["https://openalex.org/I39147953"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5073657163","display_name":"Alberto Salguero","orcid":"https://orcid.org/0000-0001-9221-7351"},"institutions":[{"id":"https://openalex.org/I39147953","display_name":"Universidad de C\u00e1diz","ror":"https://ror.org/04mxxkb11","country_code":"ES","type":"education","lineage":["https://openalex.org/I39147953"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Alberto G. Salguero","raw_affiliation_strings":["University of Cadiz, Faculty of Engineering, Department of Computer Science , Puerto Real , Spain"],"raw_orcid":"https://orcid.org/0000-0001-9221-7351","affiliations":[{"raw_affiliation_string":"University of Cadiz, Faculty of Engineering, Department of Computer Science , Puerto Real , Spain","institution_ids":["https://openalex.org/I39147953"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5010845295"],"corresponding_institution_ids":["https://openalex.org/I39147953"],"apc_list":null,"apc_paid":null,"fwci":0.175,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.56192015,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"17","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11829","display_name":"Mathematical Biology Tumor Growth","score":0.9948999881744385,"subfield":{"id":"https://openalex.org/subfields/2611","display_name":"Modeling and Simulation"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11829","display_name":"Mathematical Biology Tumor Growth","score":0.9948999881744385,"subfield":{"id":"https://openalex.org/subfields/2611","display_name":"Modeling and Simulation"},"field":{"id":"https://openalex.org/fields/26","display_name":"Mathematics"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10492","display_name":"Microtubule and mitosis dynamics","score":0.991599977016449,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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":0.9850000143051147,"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":0.8476821184158325},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.5745288133621216},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.4974265396595001},{"id":"https://openalex.org/keywords/ductal-carcinoma","display_name":"Ductal carcinoma","score":0.48253294825553894},{"id":"https://openalex.org/keywords/coherence","display_name":"Coherence (philosophical gambling strategy)","score":0.44446539878845215},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.42565980553627014},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3364703059196472},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3328790068626404},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.09041503071784973},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.08656108379364014},{"id":"https://openalex.org/keywords/breast-cancer","display_name":"Breast cancer","score":0.08272454142570496}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8476821184158325},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.5745288133621216},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.4974265396595001},{"id":"https://openalex.org/C2780862961","wikidata":"https://www.wikidata.org/wiki/Q5311598","display_name":"Ductal carcinoma","level":4,"score":0.48253294825553894},{"id":"https://openalex.org/C2781181686","wikidata":"https://www.wikidata.org/wiki/Q4226068","display_name":"Coherence (philosophical gambling strategy)","level":2,"score":0.44446539878845215},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.42565980553627014},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3364703059196472},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3328790068626404},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.09041503071784973},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.08656108379364014},{"id":"https://openalex.org/C530470458","wikidata":"https://www.wikidata.org/wiki/Q128581","display_name":"Breast cancer","level":3,"score":0.08272454142570496},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.0},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002285","descriptor_name":"Carcinoma, Intraductal, Noninfiltrating","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002285","descriptor_name":"Carcinoma, Intraductal, Noninfiltrating","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002285","descriptor_name":"Carcinoma, Intraductal, Noninfiltrating","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":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1515/jib-2019-0070","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2019-0070","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2019-0070/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32267247","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32267247","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":"Journal of integrative bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:054cf6106d884c11ad5915952edd030f","is_oa":true,"landing_page_url":"https://doaj.org/article/054cf6106d884c11ad5915952edd030f","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Integrative Bioinformatics, Vol 17, Iss 1, Pp 730-45 (2020)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7734501","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7734501","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Integr Bioinform","raw_type":"Text"},{"id":"pmh:oai:rodin.uca.es:10498/23293","is_oa":true,"landing_page_url":"http://hdl.handle.net/10498/23293","pdf_url":null,"source":{"id":"https://openalex.org/S4306400506","display_name":"RODIN (Universidad de C\u00e1diz)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I39147953","host_organization_name":"Universidad de C\u00e1diz","host_organization_lineage":["https://openalex.org/I39147953"],"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":"Journal of Integrative Bioinformatics. 2020; 20190070","raw_type":"journal article"}],"best_oa_location":{"id":"doi:10.1515/jib-2019-0070","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2019-0070","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2019-0070/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3015015661.pdf","grobid_xml":"https://content.openalex.org/works/W3015015661.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W653189814","https://openalex.org/W1489022082","https://openalex.org/W1531188472","https://openalex.org/W1543043084","https://openalex.org/W1979027408","https://openalex.org/W2002785668","https://openalex.org/W2006664445","https://openalex.org/W2045506295","https://openalex.org/W2064971332","https://openalex.org/W2066288526","https://openalex.org/W2082447375","https://openalex.org/W2102368725","https://openalex.org/W2111087655","https://openalex.org/W2125381601","https://openalex.org/W2139802217","https://openalex.org/W2160135160","https://openalex.org/W2179429273","https://openalex.org/W2261891885","https://openalex.org/W2263695121","https://openalex.org/W2328892792","https://openalex.org/W2567383602","https://openalex.org/W2609231396","https://openalex.org/W2887383860","https://openalex.org/W2888855231","https://openalex.org/W4244467330"],"related_works":["https://openalex.org/W2058965144","https://openalex.org/W2164382479","https://openalex.org/W98480971","https://openalex.org/W2150291671","https://openalex.org/W2027972911","https://openalex.org/W2146343568","https://openalex.org/W2013643406","https://openalex.org/W2157978810","https://openalex.org/W2597809628","https://openalex.org/W3046370962"],"abstract_inverted_index":{"In":[0,90],"the":[1,13,23,40,57,61,104,107,115,118,127,130,142,146,149],"field":[2],"of":[3,34,50,76,106,117,129,133,141,145,151],"computational":[4,93],"biology,":[5],"in":[6,56,63,135],"order":[7],"to":[8,78,86,113,126],"simulate":[9],"multiscale":[10],"biological":[11],"systems,":[12],"Cellular":[14],"Potts":[15],"Model":[16],"(CPM)":[17],"has":[18,123],"been":[19,124],"used,":[20],"which":[21],"determines":[22],"actions":[24],"that":[25,36,42,59,72,109],"simulated":[26,143],"cells":[27,44],"can":[28],"perform":[29],"by":[30],"determining":[31],"a":[32,47,159],"hamiltonian":[33],"energy":[35],"takes":[37],"into":[38],"account":[39],"influence":[41],"neighboring":[43],"exert,":[45],"under":[46],"wide":[48],"range":[49],"parameters.":[51],"There":[52],"are":[53,84,154],"some":[54],"proposals":[55],"literature":[58],"parallelize":[60],"CPM;":[62],"all":[64],"cases,":[65,92],"either":[66],"lock-based":[67],"techniques":[68,71],"or":[69],"other":[70],"require":[73],"large":[74],"amounts":[75],"information":[77],"be":[79],"disseminated":[80],"among":[81],"parallel":[82],"tasks":[83],"used":[85],"preserve":[87],"data":[88],"coherence.":[89],"both":[91],"performance":[94],"is":[95],"limited.":[96],"This":[97],"work":[98],"proposes":[99],"an":[100],"alternative":[101],"approach":[102],"for":[103],"parallelization":[105],"model":[108,147],"uses":[110],"transactional":[111],"memory":[112],"maintain":[114],"coherence":[116],"information.":[119],"A":[120],"Java":[121],"implementation":[122],"applied":[125],"simulation":[128],"ductal":[131],"adenocarcinoma":[132],"breast":[134],"situ":[136],"(DCIS).":[137],"Times":[138],"and":[139],"speedups":[140],"execution":[144],"on":[148],"cluster":[150],"our":[152],"university":[153],"analyzed.":[155],"The":[156],"results":[157],"show":[158],"good":[160],"speedup.":[161]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":3},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
