{"id":"https://openalex.org/W4225342168","doi":"https://doi.org/10.1371/journal.pcbi.1009735","title":"Spatially distributed infection increases viral load in a computational model of SARS-CoV-2 lung infection","display_name":"Spatially distributed infection increases viral load in a computational model of SARS-CoV-2 lung infection","publication_year":2021,"publication_date":"2021-12-23","ids":{"openalex":"https://openalex.org/W4225342168","doi":"https://doi.org/10.1371/journal.pcbi.1009735","pmid":"https://pubmed.ncbi.nlm.nih.gov/34941862"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1009735","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009735","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1009735","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010797607","display_name":"Melanie E. Moses","orcid":"https://orcid.org/0000-0002-8848-9554"},"institutions":[{"id":"https://openalex.org/I1308548392","display_name":"Santa Fe Institute","ror":"https://ror.org/01arysc35","country_code":"US","type":"funder","lineage":["https://openalex.org/I1308548392"]},{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Melanie E. Moses","raw_affiliation_strings":["Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America","Santa Fe Institute, Santa Fe, New Mexico, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-8848-9554","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America","institution_ids":["https://openalex.org/I169521973"]},{"raw_affiliation_string":"Santa Fe Institute, Santa Fe, New Mexico, United States of America","institution_ids":["https://openalex.org/I1308548392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016671058","display_name":"Steven Hofmeyr","orcid":"https://orcid.org/0000-0002-3299-472X"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steven Hofmeyr","raw_affiliation_strings":["Lawrence Berkeley National Laboratory, Berkeley, California, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, Berkeley, California, United States of America","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089184804","display_name":"Judy L. Cannon","orcid":"https://orcid.org/0000-0003-0069-8106"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Judy L. Cannon","raw_affiliation_strings":["Department of Molecular Genetics and Microbiology, University of New Mexico School of Medicine, Albuquerque, New Mexico, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-0069-8106","affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics and Microbiology, University of New Mexico School of Medicine, Albuquerque, New Mexico, United States of America","institution_ids":["https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031976954","display_name":"Akil Andrews","orcid":"https://orcid.org/0000-0001-6637-1582"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Akil Andrews","raw_affiliation_strings":["Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America"],"raw_orcid":"https://orcid.org/0000-0001-6637-1582","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America","institution_ids":["https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083386603","display_name":"Rebekah Gridley","orcid":null},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rebekah Gridley","raw_affiliation_strings":["Department of Molecular Genetics and Microbiology, University of New Mexico School of Medicine, Albuquerque, New Mexico, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics and Microbiology, University of New Mexico School of Medicine, Albuquerque, New Mexico, United States of America","institution_ids":["https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065010991","display_name":"Monica Hinga","orcid":"https://orcid.org/0000-0002-8996-4388"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Monica Hinga","raw_affiliation_strings":["Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America","institution_ids":["https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023632037","display_name":"Kirtus G. Leyba","orcid":"https://orcid.org/0000-0002-2360-8700"},"institutions":[{"id":"https://openalex.org/I55732556","display_name":"Arizona State University","ror":"https://ror.org/03efmqc40","country_code":"US","type":"education","lineage":["https://openalex.org/I55732556"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kirtus Leyba","raw_affiliation_strings":["Biodesign Institute, Arizona State University, Tempe, Arizona, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-2360-8700","affiliations":[{"raw_affiliation_string":"Biodesign Institute, Arizona State University, Tempe, Arizona, United States of America","institution_ids":["https://openalex.org/I55732556"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080273556","display_name":"Abigail Pribisova","orcid":"https://orcid.org/0000-0002-7462-9384"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Abigail Pribisova","raw_affiliation_strings":["Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-7462-9384","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America","institution_ids":["https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080897469","display_name":"Vanessa Surjadidjaja","orcid":null},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Vanessa Surjadidjaja","raw_affiliation_strings":["Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America","institution_ids":["https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043664683","display_name":"Humayra Tasnim","orcid":"https://orcid.org/0000-0002-7796-7717"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Humayra Tasnim","raw_affiliation_strings":["Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-7796-7717","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of New Mexico, Albuquerque, New Mexico, United States of America","institution_ids":["https://openalex.org/I169521973"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5114376382","display_name":"Stephanie Forrest","orcid":"https://orcid.org/0000-0002-5904-1646"},"institutions":[{"id":"https://openalex.org/I1308548392","display_name":"Santa Fe Institute","ror":"https://ror.org/01arysc35","country_code":"US","type":"funder","lineage":["https://openalex.org/I1308548392"]},{"id":"https://openalex.org/I55732556","display_name":"Arizona State University","ror":"https://ror.org/03efmqc40","country_code":"US","type":"education","lineage":["https://openalex.org/I55732556"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stephanie Forrest","raw_affiliation_strings":["Biodesign Institute, Arizona State University, Tempe, Arizona, United States of America","Santa Fe Institute, Santa Fe, New Mexico, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-5904-1646","affiliations":[{"raw_affiliation_string":"Biodesign Institute, Arizona State University, Tempe, Arizona, United States of America","institution_ids":["https://openalex.org/I55732556"]},{"raw_affiliation_string":"Santa Fe Institute, Santa Fe, New Mexico, United States of America","institution_ids":["https://openalex.org/I1308548392"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5010797607"],"corresponding_institution_ids":["https://openalex.org/I1308548392","https://openalex.org/I169521973"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":1.4341,"has_fulltext":false,"cited_by_count":29,"citation_normalized_percentile":{"value":0.85001553,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"17","issue":"12","first_page":"e1009735","last_page":"e1009735"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"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/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"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/T10410","display_name":"COVID-19 epidemiological studies","score":0.9993000030517578,"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/T10990","display_name":"Infection Control and Ventilation","score":0.9926999807357788,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"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/viral-load","display_name":"Viral load","score":0.6933324337005615},{"id":"https://openalex.org/keywords/immune-system","display_name":"Immune system","score":0.6084359288215637},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5564616918563843},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.4852423667907715},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.4661591947078705},{"id":"https://openalex.org/keywords/lung","display_name":"Lung","score":0.46429380774497986},{"id":"https://openalex.org/keywords/virus","display_name":"Virus","score":0.4371529817581177},{"id":"https://openalex.org/keywords/dynamics","display_name":"Dynamics (music)","score":0.42000359296798706},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.22365015745162964},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.19793438911437988}],"concepts":[{"id":"https://openalex.org/C142462285","wikidata":"https://www.wikidata.org/wiki/Q2528140","display_name":"Viral load","level":3,"score":0.6933324337005615},{"id":"https://openalex.org/C8891405","wikidata":"https://www.wikidata.org/wiki/Q1059","display_name":"Immune system","level":2,"score":0.6084359288215637},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5564616918563843},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.4852423667907715},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.4661591947078705},{"id":"https://openalex.org/C2777714996","wikidata":"https://www.wikidata.org/wiki/Q7886","display_name":"Lung","level":2,"score":0.46429380774497986},{"id":"https://openalex.org/C2522874641","wikidata":"https://www.wikidata.org/wiki/Q808","display_name":"Virus","level":2,"score":0.4371529817581177},{"id":"https://openalex.org/C145912823","wikidata":"https://www.wikidata.org/wiki/Q113558","display_name":"Dynamics (music)","level":2,"score":0.42000359296798706},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.22365015745162964},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.19793438911437988},{"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/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000302","qualifier_name":"isolation & purification","is_major_topic":false},{"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":"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":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D008168","descriptor_name":"Lung","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D018414","descriptor_name":"CD8-Positive T-Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018414","descriptor_name":"CD8-Positive T-Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018414","descriptor_name":"CD8-Positive T-Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D018414","descriptor_name":"CD8-Positive T-Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":8,"locations":[{"id":"doi:10.1371/journal.pcbi.1009735","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009735","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:34941862","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34941862","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:4d02e3fdd6e24441ae6624428ae80120","is_oa":true,"landing_page_url":"https://doaj.org/article/4d02e3fdd6e24441ae6624428ae80120","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":"PLoS Computational Biology, Vol 17, Iss 12, p e1009735 (2021)","raw_type":"article"},{"id":"pmh:oai:escholarship.org:ark:/13030/qt8xk370rc","is_oa":true,"landing_page_url":"https://escholarship.org/uc/item/8xk370rc","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLOS Computational Biology, vol 17, iss 12","raw_type":"article"},{"id":"pmh:oai:osti.gov:1837340","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1837340","pdf_url":null,"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},{"id":"pmh:oai:osti.gov:1838923","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1838923","pdf_url":null,"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},{"id":"pmh:oai:osti.gov:1854848","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1854848","pdf_url":null,"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},{"id":"pmh:oai:pubmedcentral.nih.gov:8740970","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8740970","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1009735","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009735","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.75,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1286236842","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G1370512034","display_name":null,"funder_award_id":"2030037","funder_id":"https://openalex.org/F4320335353","funder_display_name":"National Science Foundation of Sri Lanka"},{"id":"https://openalex.org/G1380692718","display_name":"Collaborative Research: RAPID: Spatial Modeling of Immune Response to Multifocal SARS-CoV-2 Viral Lung Infection","funder_award_id":"2029696","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G1600677715","display_name":null,"funder_award_id":"AFRL FA-8650-18-C-6898","funder_id":"https://openalex.org/F4320332180","funder_display_name":"Defense Advanced Research Projects Agency"},{"id":"https://openalex.org/G1799333409","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320337506","funder_display_name":"Advanced Scientific Computing Research"},{"id":"https://openalex.org/G2539837713","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3083819904","display_name":null,"funder_award_id":"05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3535665639","display_name":null,"funder_award_id":"2029696","funder_id":"https://openalex.org/F4320335353","funder_display_name":"National Science Foundation of Sri Lanka"},{"id":"https://openalex.org/G4501827968","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4565140552","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G498139845","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G5206177008","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332180","funder_display_name":"Defense Advanced Research Projects Agency"},{"id":"https://openalex.org/G5782419632","display_name":null,"funder_award_id":"P20GM121176","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G6348972864","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6558272803","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6859237865","display_name":null,"funder_award_id":"17-SC-20-SC","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7233692708","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7368046788","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7462325403","display_name":"Collaborative Research: RAPID: Spatial Modeling of Immune Response to Multifocal SARS-CoV-2 Viral Lung Infection","funder_award_id":"2030037","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G7538560101","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8052219770","display_name":null,"funder_award_id":"17-SC-20-SC","funder_id":"https://openalex.org/F4320337506","funder_display_name":"Advanced Scientific Computing Research"},{"id":"https://openalex.org/G8234470690","display_name":null,"funder_award_id":"17-SC-20-SC","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8253304997","display_name":null,"funder_award_id":"17-SC-20-SC","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G8448400866","display_name":null,"funder_award_id":"P20GM121176","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G969889393","display_name":null,"funder_award_id":"DE-AC02-","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"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/F4320332180","display_name":"Defense Advanced Research Projects Agency","ror":"https://ror.org/02caytj08"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"},{"id":"https://openalex.org/F4320335353","display_name":"National Science Foundation of Sri Lanka","ror":"https://ror.org/010xaa060"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337506","display_name":"Advanced Scientific Computing Research","ror":"https://ror.org/0012c7r22"},{"id":"https://openalex.org/F4320338294","display_name":"Air Force Research Laboratory","ror":"https://ror.org/02e2egq70"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":75,"referenced_works":["https://openalex.org/W1997574431","https://openalex.org/W2002054283","https://openalex.org/W2018040904","https://openalex.org/W2019558320","https://openalex.org/W2034203593","https://openalex.org/W2066572646","https://openalex.org/W2082206279","https://openalex.org/W2100994301","https://openalex.org/W2113641798","https://openalex.org/W2139699918","https://openalex.org/W2161230104","https://openalex.org/W2166616712","https://openalex.org/W2171405797","https://openalex.org/W2248463412","https://openalex.org/W2252348008","https://openalex.org/W2255203180","https://openalex.org/W2281460550","https://openalex.org/W2301269841","https://openalex.org/W2760952567","https://openalex.org/W2810604741","https://openalex.org/W2913135575","https://openalex.org/W2949453209","https://openalex.org/W3013186573","https://openalex.org/W3013562179","https://openalex.org/W3013893137","https://openalex.org/W3015172298","https://openalex.org/W3015686348","https://openalex.org/W3015848059","https://openalex.org/W3020653337","https://openalex.org/W3021634238","https://openalex.org/W3023787531","https://openalex.org/W3024607230","https://openalex.org/W3025320502","https://openalex.org/W3034219882","https://openalex.org/W3035882304","https://openalex.org/W3035973582","https://openalex.org/W3036887118","https://openalex.org/W3043699273","https://openalex.org/W3043831218","https://openalex.org/W3046527182","https://openalex.org/W3047880178","https://openalex.org/W3048334038","https://openalex.org/W3048921320","https://openalex.org/W3084879098","https://openalex.org/W3089187216","https://openalex.org/W3091654554","https://openalex.org/W3093988179","https://openalex.org/W3095153958","https://openalex.org/W3097700173","https://openalex.org/W3104457017","https://openalex.org/W3108672867","https://openalex.org/W3112856787","https://openalex.org/W3113850696","https://openalex.org/W3119858919","https://openalex.org/W3119992512","https://openalex.org/W3123967880","https://openalex.org/W3124476683","https://openalex.org/W3126652124","https://openalex.org/W3127086530","https://openalex.org/W3127095101","https://openalex.org/W3132346899","https://openalex.org/W3135785201","https://openalex.org/W3138664636","https://openalex.org/W3139167208","https://openalex.org/W3139286950","https://openalex.org/W3155282995","https://openalex.org/W3156886555","https://openalex.org/W3157234922","https://openalex.org/W3193304945","https://openalex.org/W3193829809","https://openalex.org/W4200368137","https://openalex.org/W4244108230","https://openalex.org/W4300166283","https://openalex.org/W6788553154","https://openalex.org/W7016071146"],"related_works":["https://openalex.org/W4288713694","https://openalex.org/W2087771447","https://openalex.org/W2614902832","https://openalex.org/W2055280854","https://openalex.org/W2334605091","https://openalex.org/W2973584526","https://openalex.org/W2036827172","https://openalex.org/W4280642433","https://openalex.org/W4302367648","https://openalex.org/W4399861321"],"abstract_inverted_index":{"A":[0],"key":[1],"question":[2],"in":[3,30,65,157,169,175],"SARS-CoV-2":[4,197],"infection":[5,127],"is":[6,147],"why":[7],"viral":[8,21,61,77,95,113],"loads":[9],"and":[10,23,56,67,86,98,128,131],"patient":[11],"outcomes":[12],"vary":[13],"dramatically":[14,111],"across":[15],"individuals.":[16],"Because":[17],"spatial-temporal":[18],"dynamics":[19,63,195],"of":[20,37,47,49,88,123,126,133,144,161,193,196],"spread":[22],"immune":[24,137],"response":[25,92],"are":[26],"challenging":[27],"to":[28,75],"study":[29],"vivo,":[31],"we":[32,150],"developed":[33],"Spatial":[34],"Immune":[35],"Model":[36],"Coronavirus":[38],"(SIMCoV),":[39],"a":[40,106,158,176],"scalable":[41],"computational":[42,188],"model":[43,80],"that":[44,152],"simulates":[45],"hundreds":[46],"millions":[48],"lung":[50,146],"cells,":[51,163],"including":[52],"respiratory":[53],"epithelial":[54,162],"cells":[55],"T":[57,90,135],"cells.":[58],"SIMCoV":[59,104],"replicates":[60],"growth":[62],"observed":[64],"patients":[66,117],"shows":[68,82],"how":[69,83,184],"spatially":[70,186],"dispersed":[71],"infections":[72],"can":[73,93,190],"lead":[74],"increased":[76],"loads.":[78],"The":[79],"also":[81],"the":[84,89,110,121,129,134,140,145],"timing":[85,132],"strength":[87],"cell":[91,136],"affect":[94],"persistence,":[96],"oscillations,":[97],"control.":[99],"By":[100],"incorporating":[101],"spatial":[102],"interactions,":[103],"provides":[105],"parsimonious":[107],"explanation":[108],"for":[109],"different":[112],"load":[114],"trajectories":[115],"among":[116],"by":[118],"varying":[119],"only":[120],"number":[122],"initial":[124],"sites":[125],"magnitude":[130],"response.":[138],"When":[139],"branching":[141],"airway":[142],"structure":[143],"explicitly":[148],"represented,":[149],"find":[151],"virus":[153],"spreads":[154],"faster":[155],"than":[156,168],"2D":[159],"layer":[160],"but":[164],"much":[165],"more":[166],"slowly":[167],"an":[170],"undifferentiated":[171],"3D":[172],"grid":[173],"or":[174],"well-mixed":[177],"differential":[178],"equation":[179],"model.":[180],"These":[181],"results":[182],"illustrate":[183],"realistic,":[185],"explicit":[187],"models":[189],"improve":[191],"understanding":[192],"within-host":[194],"infection.":[198]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":6}],"updated_date":"2026-05-23T08:51:43.019350","created_date":"2025-10-10T00:00:00"}
