{"id":"https://openalex.org/W3196045012","doi":"https://doi.org/10.1177/00375497211040074","title":"Tissue scale agent-based simulation of premalignant progressions in Barrett\u2019s esophagus","display_name":"Tissue scale agent-based simulation of premalignant progressions in Barrett\u2019s esophagus","publication_year":2021,"publication_date":"2021-08-21","ids":{"openalex":"https://openalex.org/W3196045012","doi":"https://doi.org/10.1177/00375497211040074","mag":"3196045012"},"language":"en","primary_location":{"id":"doi:10.1177/00375497211040074","is_oa":false,"landing_page_url":"https://doi.org/10.1177/00375497211040074","pdf_url":null,"source":{"id":"https://openalex.org/S32573412","display_name":"SIMULATION","issn_l":"0037-5497","issn":["0037-5497","1741-3133"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320017","host_organization_name":"SAGE Publishing","host_organization_lineage":["https://openalex.org/P4310320017"],"host_organization_lineage_names":["SAGE Publishing"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"SIMULATION","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.osti.gov/servlets/purl/1817610","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103064374","display_name":"\u00d6zg\u00fcr \u00d6zmen","orcid":"https://orcid.org/0000-0002-5806-0116"},"institutions":[{"id":"https://openalex.org/I1289243028","display_name":"Oak Ridge National Laboratory","ror":"https://ror.org/01qz5mb56","country_code":"US","type":"facility","lineage":["https://openalex.org/I1289243028","https://openalex.org/I1330989302","https://openalex.org/I39565521","https://openalex.org/I4210159294"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ozgur Ozmen","raw_affiliation_strings":["Computational Sciences and Engineering Division, Oak Ridge National Laboratory, USA"],"raw_orcid":"https://orcid.org/0000-0002-5806-0116","affiliations":[{"raw_affiliation_string":"Computational Sciences and Engineering Division, Oak Ridge National Laboratory, USA","institution_ids":["https://openalex.org/I1289243028"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061121197","display_name":"James Nutaro","orcid":"https://orcid.org/0000-0001-7360-2836"},"institutions":[{"id":"https://openalex.org/I1289243028","display_name":"Oak Ridge National Laboratory","ror":"https://ror.org/01qz5mb56","country_code":"US","type":"facility","lineage":["https://openalex.org/I1289243028","https://openalex.org/I1330989302","https://openalex.org/I39565521","https://openalex.org/I4210159294"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James Nutaro","raw_affiliation_strings":["Computational Sciences and Engineering Division, Oak Ridge National Laboratory, USA"],"raw_orcid":"https://orcid.org/0000-0001-7360-2836","affiliations":[{"raw_affiliation_string":"Computational Sciences and Engineering Division, Oak Ridge National Laboratory, USA","institution_ids":["https://openalex.org/I1289243028"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091817985","display_name":"Sassan Ostvar","orcid":"https://orcid.org/0000-0002-7034-9625"},"institutions":[{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sassan Ostvar","raw_affiliation_strings":["Columbia University Irving Medical Center, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Columbia University Irving Medical Center, USA","institution_ids":["https://openalex.org/I2799503643"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055200350","display_name":"Chin Hur","orcid":"https://orcid.org/0000-0002-2819-7576"},"institutions":[{"id":"https://openalex.org/I2799503643","display_name":"Columbia University Irving Medical Center","ror":"https://ror.org/01esghr10","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2799503643"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chin Hur","raw_affiliation_strings":["Columbia University Irving Medical Center, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Columbia University Irving Medical Center, USA","institution_ids":["https://openalex.org/I2799503643"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5009216690","display_name":"Chung Yin Kong","orcid":"https://orcid.org/0000-0001-6431-7830"},"institutions":[{"id":"https://openalex.org/I4210087915","display_name":"Massachusetts General Hospital","ror":"https://ror.org/002pd6e78","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210087915","https://openalex.org/I48633490"]},{"id":"https://openalex.org/I4210122545","display_name":"Center for Assessment","ror":"https://ror.org/02pdqrx22","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210122545"]},{"id":"https://openalex.org/I98704320","display_name":"Icahn School of Medicine at Mount Sinai","ror":"https://ror.org/04a9tmd77","country_code":"US","type":"education","lineage":["https://openalex.org/I1320796813","https://openalex.org/I98704320"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chung Yin Kong","raw_affiliation_strings":["Division of General Internal Medicine, Icahn School of Medicine at Mount Sinai, USA","Institute for Technology Assessment, Massachusetts General Hospital, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Division of General Internal Medicine, Icahn School of Medicine at Mount Sinai, USA","institution_ids":["https://openalex.org/I98704320"]},{"raw_affiliation_string":"Institute for Technology Assessment, Massachusetts General Hospital, USA","institution_ids":["https://openalex.org/I4210122545","https://openalex.org/I4210087915"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5103064374"],"corresponding_institution_ids":["https://openalex.org/I1289243028"],"apc_list":null,"apc_paid":null,"fwci":0.4171,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.63278779,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"98","issue":"4","first_page":"275","last_page":"284"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10619","display_name":"Esophageal Cancer Research and Treatment","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/2746","display_name":"Surgery"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},"topics":[{"id":"https://openalex.org/T10619","display_name":"Esophageal Cancer Research and Treatment","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/2746","display_name":"Surgery"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11658","display_name":"Esophageal and GI Pathology","score":0.9513000249862671,"subfield":{"id":"https://openalex.org/subfields/2746","display_name":"Surgery"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11485","display_name":"Gastrointestinal Tumor Research and Treatment","score":0.9506000280380249,"subfield":{"id":"https://openalex.org/subfields/2715","display_name":"Gastroenterology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/dysplasia","display_name":"Dysplasia","score":0.751139760017395},{"id":"https://openalex.org/keywords/barretts-esophagus","display_name":"Barrett's esophagus","score":0.688658595085144},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.6620321273803711},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.5973688960075378},{"id":"https://openalex.org/keywords/esophagus","display_name":"Esophagus","score":0.5640623569488525},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.40674737095832825},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.3972376585006714},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.30818676948547363},{"id":"https://openalex.org/keywords/internal-medicine","display_name":"Internal medicine","score":0.2717040181159973},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.2442304491996765},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1914646327495575},{"id":"https://openalex.org/keywords/adenocarcinoma","display_name":"Adenocarcinoma","score":0.19094565510749817}],"concepts":[{"id":"https://openalex.org/C2775894508","wikidata":"https://www.wikidata.org/wiki/Q1128996","display_name":"Dysplasia","level":2,"score":0.751139760017395},{"id":"https://openalex.org/C2778589982","wikidata":"https://www.wikidata.org/wiki/Q808892","display_name":"Barrett's esophagus","level":4,"score":0.688658595085144},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6620321273803711},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.5973688960075378},{"id":"https://openalex.org/C2777819096","wikidata":"https://www.wikidata.org/wiki/Q173710","display_name":"Esophagus","level":2,"score":0.5640623569488525},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.40674737095832825},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.3972376585006714},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.30818676948547363},{"id":"https://openalex.org/C126322002","wikidata":"https://www.wikidata.org/wiki/Q11180","display_name":"Internal medicine","level":1,"score":0.2717040181159973},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.2442304491996765},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1914646327495575},{"id":"https://openalex.org/C2781182431","wikidata":"https://www.wikidata.org/wiki/Q356033","display_name":"Adenocarcinoma","level":3,"score":0.19094565510749817},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C99454951","wikidata":"https://www.wikidata.org/wiki/Q932068","display_name":"Environmental health","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1177/00375497211040074","is_oa":false,"landing_page_url":"https://doi.org/10.1177/00375497211040074","pdf_url":null,"source":{"id":"https://openalex.org/S32573412","display_name":"SIMULATION","issn_l":"0037-5497","issn":["0037-5497","1741-3133"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320017","host_organization_name":"SAGE Publishing","host_organization_lineage":["https://openalex.org/P4310320017"],"host_organization_lineage_names":["SAGE Publishing"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"SIMULATION","raw_type":"journal-article"},{"id":"pmh:oai:osti.gov:1817610","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1817610","pdf_url":"https://www.osti.gov/servlets/purl/1817610","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"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":null}],"best_oa_location":{"id":"pmh:oai:osti.gov:1817610","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1817610","pdf_url":"https://www.osti.gov/servlets/purl/1817610","source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"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":null},"sustainable_development_goals":[{"score":0.5099999904632568,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1645119126","display_name":null,"funder_award_id":"AC05-00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G1719536385","display_name":null,"funder_award_id":"DE-AC05-00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2569679037","display_name":null,"funder_award_id":"JDACS4C","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2584197162","display_name":null,"funder_award_id":"DE-AC05-00OR22725","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G314071323","display_name":null,"funder_award_id":"JDACS4C","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G7995982022","display_name":null,"funder_award_id":"DE-AC05","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8906985441","display_name":null,"funder_award_id":"00OR22725","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W3196045012.pdf"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W78437532","https://openalex.org/W170675486","https://openalex.org/W380683936","https://openalex.org/W1484359847","https://openalex.org/W1591567663","https://openalex.org/W1606124548","https://openalex.org/W1961375731","https://openalex.org/W1972329071","https://openalex.org/W2001598892","https://openalex.org/W2006336028","https://openalex.org/W2011739880","https://openalex.org/W2024455739","https://openalex.org/W2036282859","https://openalex.org/W2039382798","https://openalex.org/W2078068870","https://openalex.org/W2095256813","https://openalex.org/W2136839211","https://openalex.org/W2147556962","https://openalex.org/W2204442734","https://openalex.org/W2263576298","https://openalex.org/W2267176325","https://openalex.org/W2314540303","https://openalex.org/W2335791412","https://openalex.org/W2338240224","https://openalex.org/W2573825055","https://openalex.org/W2599195295","https://openalex.org/W2802032711","https://openalex.org/W3123713485","https://openalex.org/W4247399018"],"related_works":["https://openalex.org/W4361947708","https://openalex.org/W4361958267","https://openalex.org/W4226058908","https://openalex.org/W4244811565","https://openalex.org/W2548664182","https://openalex.org/W2331267639","https://openalex.org/W2108371578","https://openalex.org/W1522642799","https://openalex.org/W2388148767","https://openalex.org/W3115293352"],"abstract_inverted_index":{"Barrett\u2019s":[0,129,210],"esophagus":[1,10],"(BE)":[2],"is":[3,34,83,230],"a":[4,13,53,61,72,94,138,152,175,206,218],"benign":[5],"condition":[6],"of":[7,21,56,65,69,78,90,113,124,134,146,157,183,188,200,209,221],"the":[8,57,66,102,119,132,144,184,189,214,244],"distal":[9],"that":[11,172,212],"initiates":[12],"multistage":[14],"pathway":[15],"to":[16,36,109,232],"esophageal":[17],"adenocarcinoma":[18],"(EAC).":[19],"Short":[20],"frequent":[22],"intrusive":[23],"(and":[24],"costly)":[25],"surveillance,":[26],"effective":[27],"screening":[28,79,104],"for":[29,80,116],"neoplasia":[30],"in":[31,71,93,101,149,162,166,205],"BE":[32,58,73,150],"populations":[33],"yet":[35],"be":[37],"established":[38],"since":[39],"progressors":[40],"are":[41,241],"rare":[42],"and":[43,75,126,131,159,180,186],"virtually":[44],"undetectable":[45],"without":[46],"routine":[47],"biopsies,":[48],"which":[49],"often":[50],"sample":[51],"only":[52],"small":[54],"portion":[55],"tissue.":[59],"As":[60],"result,":[62],"reliable":[63],"estimation":[64],"true":[67],"prevalence":[68,237],"dysplasia":[70,163,236],"population":[74],"evidence-based":[76],"optimization":[77],"at-risk":[81],"individuals":[82],"challenging.":[84],"Data-driven":[85],"microsimulations,":[86],"i.e.,":[87],"model-generated":[88,239],"instances":[89],"disease":[91,135,147],"history":[92],"predefined":[95],"virtual":[96],"population,":[97],"have":[98,142],"found":[99],"utility":[100],"EAC":[103,204],"literature":[105],"as":[106,137,151,169],"low-overhead":[107],"alternatives":[108],"real-world":[110],"hypothesis":[111],"testing":[112],"optimal":[114],"interventions":[115],"dysplasia.":[117],"Despite":[118],"successes,":[120],"computational":[121,178],"limitations,":[122],"paucity":[123],"knowledge":[125],"data":[127],"on":[128],"dysplasia,":[130],"complexities":[133],"progression":[136,148,202],"multiscale":[139],"multiphysics":[140],"process":[141],"hindered":[143],"treatment":[145],"spatial":[153],"process.":[154],"Agent-based":[155],"modeling":[156],"nucleation":[158],"proliferation":[160],"processes":[161],"warrants":[164],"exploration":[165],"this":[167,193],"context":[168],"an":[170],"approximation":[171],"operates":[173],"at":[174,217],"trade-off":[176],"between":[177],"tractability":[179],"precise":[181],"representation":[182],"composition":[185],"physics":[187],"substrate":[190],"(tissue).":[191],"In":[192],"study,":[194],"we":[195],"describe":[196],"spatially":[197],"resolved":[198],"simulations":[199],"premalignant":[201],"toward":[203],"coarse-grained":[207],"model":[208,229],"tissue":[211,216],"resolves":[213],"metaplastic":[215],"length":[219],"scale":[220],"0.42":[222],"mm":[223],"(~3300":[224],"crypts/mm":[225],"2":[226],").":[227],"The":[228],"calibrated":[231],"reproduce":[233],"historical":[234],"high-grade":[235],"when":[238],"patients":[240],"screened":[242],"using":[243],"Seattle":[245],"protocol.":[246]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1}],"updated_date":"2026-07-01T08:55:40.977307","created_date":"2025-10-10T00:00:00"}
