{"id":"https://openalex.org/W2035592397","doi":"https://doi.org/10.1371/journal.pcbi.1000778","title":"Identification of Key Processes that Control Tumor Necrosis Factor Availability in a Tuberculosis Granuloma","display_name":"Identification of Key Processes that Control Tumor Necrosis Factor Availability in a Tuberculosis Granuloma","publication_year":2010,"publication_date":"2010-05-06","ids":{"openalex":"https://openalex.org/W2035592397","doi":"https://doi.org/10.1371/journal.pcbi.1000778","mag":"2035592397","pmid":"https://pubmed.ncbi.nlm.nih.gov/20463877"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1000778","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000778","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000778&type=printable","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://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000778&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017895472","display_name":"Mohammad Fallahi\u2010Sichani","orcid":"https://orcid.org/0000-0003-0917-3525"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210114445","display_name":"Michigan Medicine","ror":"https://ror.org/01zcpa714","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210114445"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mohammad Fallahi-Sichani","raw_affiliation_strings":["Department of Chemical Engineering, University of Michigan, Ann Arbor, MI, USA","Department of Chemical Engineering, University of Michigan Ann Arbor, MI, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemical Engineering, University of Michigan, Ann Arbor, MI, USA","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Department of Chemical Engineering, University of Michigan Ann Arbor, MI, USA","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210114445"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061165510","display_name":"Matthew Schaller","orcid":"https://orcid.org/0000-0003-3338-0655"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210111179","display_name":"Michigan United","ror":"https://ror.org/0291ys696","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210111179"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Matthew A. Schaller","raw_affiliation_strings":["Department of Pathology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067786863","display_name":"Denise E. Kirschner","orcid":"https://orcid.org/0000-0002-1053-2591"},"institutions":[{"id":"https://openalex.org/I4210111179","display_name":"Michigan United","ror":"https://ror.org/0291ys696","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210111179"]},{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Denise E. Kirschner","raw_affiliation_strings":["Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","Department of Microbiology & Immunology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"]},{"raw_affiliation_string":"Department of Microbiology & Immunology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004928457","display_name":"Steven L. Kunkel","orcid":"https://orcid.org/0000-0002-5738-6341"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210111179","display_name":"Michigan United","ror":"https://ror.org/0291ys696","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210111179"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Steven L. Kunkel","raw_affiliation_strings":["Department of Pathology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology, University of Michigan Medical School, Ann Arbor, Michigan, United States of America","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5066699569","display_name":"Jennifer J. Linderman","orcid":"https://orcid.org/0000-0002-1519-5088"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210111179","display_name":"Michigan United","ror":"https://ror.org/0291ys696","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210111179"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jennifer J. Linderman","raw_affiliation_strings":["Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan, United States of America","institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5066699569"],"corresponding_institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210111179"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":2.63,"has_fulltext":true,"cited_by_count":57,"citation_normalized_percentile":{"value":0.89383166,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"6","issue":"5","first_page":"e1000778","last_page":"e1000778"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10038","display_name":"Tuberculosis Research and Epidemiology","score":0.9998000264167786,"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/T10038","display_name":"Tuberculosis Research and Epidemiology","score":0.9998000264167786,"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/T11316","display_name":"Mycobacterium research and diagnosis","score":0.9944999814033508,"subfield":{"id":"https://openalex.org/subfields/2713","display_name":"Epidemiology"},"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/T12318","display_name":"Quinazolinone synthesis and applications","score":0.9937999844551086,"subfield":{"id":"https://openalex.org/subfields/1605","display_name":"Organic Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/tuberculosis","display_name":"Tuberculosis","score":0.6938719749450684},{"id":"https://openalex.org/keywords/granuloma","display_name":"Granuloma","score":0.6870942711830139},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6640549898147583},{"id":"https://openalex.org/keywords/necrosis","display_name":"Necrosis","score":0.5408691763877869},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.4949435591697693},{"id":"https://openalex.org/keywords/pathology","display_name":"Pathology","score":0.48624908924102783},{"id":"https://openalex.org/keywords/tumor-necrosis-factor-alpha","display_name":"Tumor necrosis factor alpha","score":0.4367433190345764},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.38825035095214844},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3742695152759552},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.33663833141326904},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.268318235874176},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.07733151316642761}],"concepts":[{"id":"https://openalex.org/C2781069245","wikidata":"https://www.wikidata.org/wiki/Q12204","display_name":"Tuberculosis","level":2,"score":0.6938719749450684},{"id":"https://openalex.org/C2780140890","wikidata":"https://www.wikidata.org/wiki/Q1129338","display_name":"Granuloma","level":2,"score":0.6870942711830139},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6640549898147583},{"id":"https://openalex.org/C503630168","wikidata":"https://www.wikidata.org/wiki/Q178069","display_name":"Necrosis","level":2,"score":0.5408691763877869},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.4949435591697693},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.48624908924102783},{"id":"https://openalex.org/C17991360","wikidata":"https://www.wikidata.org/wiki/Q21173843","display_name":"Tumor necrosis factor alpha","level":2,"score":0.4367433190345764},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.38825035095214844},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3742695152759552},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.33663833141326904},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.268318235874176},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.07733151316642761}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"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":"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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003713","descriptor_name":"Dendritic Cells","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D003713","descriptor_name":"Dendritic Cells","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D003713","descriptor_name":"Dendritic Cells","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D003713","descriptor_name":"Dendritic Cells","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D006099","descriptor_name":"Granuloma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D008214","descriptor_name":"Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D008214","descriptor_name":"Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D008214","descriptor_name":"Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D008214","descriptor_name":"Lymphocytes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D008264","descriptor_name":"Macrophages","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D008264","descriptor_name":"Macrophages","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D008264","descriptor_name":"Macrophages","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D008264","descriptor_name":"Macrophages","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D008808","descriptor_name":"Mice, Inbred CBA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008808","descriptor_name":"Mice, Inbred CBA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008808","descriptor_name":"Mice, Inbred CBA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008808","descriptor_name":"Mice, Inbred CBA","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":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009169","descriptor_name":"Mycobacterium tuberculosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014373","descriptor_name":"Tuberculin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014373","descriptor_name":"Tuberculin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014373","descriptor_name":"Tuberculin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014373","descriptor_name":"Tuberculin","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D014376","descriptor_name":"Tuberculosis","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D014409","descriptor_name":"Tumor Necrosis Factor-alpha","qualifier_ui":"Q000037","qualifier_name":"antagonists & inhibitors","is_major_topic":false},{"descriptor_ui":"D014409","descriptor_name":"Tumor Necrosis Factor-alpha","qualifier_ui":"Q000037","qualifier_name":"antagonists & inhibitors","is_major_topic":false},{"descriptor_ui":"D014409","descriptor_name":"Tumor Necrosis Factor-alpha","qualifier_ui":"Q000037","qualifier_name":"antagonists & inhibitors","is_major_topic":false},{"descriptor_ui":"D014409","descriptor_name":"Tumor Necrosis Factor-alpha","qualifier_ui":"Q000037","qualifier_name":"antagonists & inhibitors","is_major_topic":false},{"descriptor_ui":"D014409","descriptor_name":"Tumor Necrosis Factor-alpha","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014409","descriptor_name":"Tumor Necrosis Factor-alpha","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014409","descriptor_name":"Tumor Necrosis Factor-alpha","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014409","descriptor_name":"Tumor Necrosis Factor-alpha","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017209","descriptor_name":"Apoptosis","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D017209","descriptor_name":"Apoptosis","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D017209","descriptor_name":"Apoptosis","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D017209","descriptor_name":"Apoptosis","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D018124","descriptor_name":"Receptors, Tumor Necrosis Factor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018124","descriptor_name":"Receptors, Tumor Necrosis Factor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018124","descriptor_name":"Receptors, Tumor Necrosis Factor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018124","descriptor_name":"Receptors, Tumor Necrosis Factor","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1000778","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000778","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000778&type=printable","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:20463877","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20463877","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:CiteSeerX.psu:10.1.1.354.7918","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.354.7918","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/6c/65/PLoS_Comput_Biol_2010_May_6_6(5)_e1000778.tar.gz","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.603.8275","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.603.8275","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://malthus.micro.med.umich.edu/lab/pubs/journal-1.pcbi.1000778.pdf","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:f5ff092307244531b878cfebe8851de0","is_oa":false,"landing_page_url":"https://doaj.org/article/f5ff092307244531b878cfebe8851de0","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 6, Iss 5, p e1000778 (2010)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/143567","is_oa":true,"landing_page_url":"https://figshare.com/articles/Identification_of_Key_Processes_that_Control_Tumor_Necrosis_Factor_Availability_in_a_Tuberculosis_Granuloma/143567","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Dataset"},{"id":"pmh:oai:pubmedcentral.nih.gov:2865521","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2865521","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":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1000778","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000778","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000778&type=printable","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":[{"id":"https://metadata.un.org/sdg/3","score":0.7900000214576721,"display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G1532761902","display_name":null,"funder_award_id":"R01 HL089216","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G2488511097","display_name":null,"funder_award_id":"HL 092844","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G3093141410","display_name":null,"funder_award_id":"HL 092853","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G3433490389","display_name":null,"funder_award_id":"R33 HL092853","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G4467256711","display_name":null,"funder_award_id":"R33 HL092844","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G5938318064","display_name":null,"funder_award_id":"N01 AI50018","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G5957619878","display_name":null,"funder_award_id":"R01 LM009027","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"},{"id":"https://openalex.org/G5977184347","display_name":null,"funder_award_id":"LM 009027","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G68242925","display_name":null,"funder_award_id":"LM 009027","funder_id":"https://openalex.org/F4320337372","funder_display_name":"U.S. National Library of Medicine"},{"id":"https://openalex.org/G7174930731","display_name":null,"funder_award_id":"N01 AI050018","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2035592397.pdf","grobid_xml":"https://content.openalex.org/works/W2035592397.grobid-xml"},"referenced_works_count":97,"referenced_works":["https://openalex.org/W104215929","https://openalex.org/W319935163","https://openalex.org/W750023476","https://openalex.org/W891612885","https://openalex.org/W1489810600","https://openalex.org/W1496187814","https://openalex.org/W1498486243","https://openalex.org/W1506651547","https://openalex.org/W1516799731","https://openalex.org/W1522136018","https://openalex.org/W1538577248","https://openalex.org/W1541486667","https://openalex.org/W1560919596","https://openalex.org/W1570943933","https://openalex.org/W1574498833","https://openalex.org/W1581170315","https://openalex.org/W1588012429","https://openalex.org/W1589541158","https://openalex.org/W1599801224","https://openalex.org/W1606805257","https://openalex.org/W1638738262","https://openalex.org/W1803185035","https://openalex.org/W1889350102","https://openalex.org/W1915374685","https://openalex.org/W1926569801","https://openalex.org/W1949882695","https://openalex.org/W1965685424","https://openalex.org/W1967637031","https://openalex.org/W1967981628","https://openalex.org/W1968117332","https://openalex.org/W1968295892","https://openalex.org/W1969055840","https://openalex.org/W1972257652","https://openalex.org/W1973234688","https://openalex.org/W1976575734","https://openalex.org/W1979606311","https://openalex.org/W1980799869","https://openalex.org/W1983313604","https://openalex.org/W1984113136","https://openalex.org/W1989767878","https://openalex.org/W1989770688","https://openalex.org/W1997106678","https://openalex.org/W1997325736","https://openalex.org/W1998491594","https://openalex.org/W2001851335","https://openalex.org/W2002892748","https://openalex.org/W2007875429","https://openalex.org/W2008626549","https://openalex.org/W2009735641","https://openalex.org/W2025755851","https://openalex.org/W2027292955","https://openalex.org/W2028174725","https://openalex.org/W2030900501","https://openalex.org/W2035288424","https://openalex.org/W2038535814","https://openalex.org/W2038569410","https://openalex.org/W2050896753","https://openalex.org/W2057467743","https://openalex.org/W2058050795","https://openalex.org/W2058674147","https://openalex.org/W2062617365","https://openalex.org/W2062826169","https://openalex.org/W2064173499","https://openalex.org/W2064390494","https://openalex.org/W2065791817","https://openalex.org/W2067631794","https://openalex.org/W2068103783","https://openalex.org/W2075883910","https://openalex.org/W2088679869","https://openalex.org/W2092509730","https://openalex.org/W2092630337","https://openalex.org/W2093514245","https://openalex.org/W2098201533","https://openalex.org/W2100088019","https://openalex.org/W2106621962","https://openalex.org/W2111945182","https://openalex.org/W2117333056","https://openalex.org/W2118543713","https://openalex.org/W2128108907","https://openalex.org/W2132466045","https://openalex.org/W2137837747","https://openalex.org/W2138055082","https://openalex.org/W2138230061","https://openalex.org/W2144217393","https://openalex.org/W2144781247","https://openalex.org/W2147859155","https://openalex.org/W2150422870","https://openalex.org/W2152245204","https://openalex.org/W2152803686","https://openalex.org/W2154653890","https://openalex.org/W2155935320","https://openalex.org/W2161680868","https://openalex.org/W2164008726","https://openalex.org/W2169930621","https://openalex.org/W2222716859","https://openalex.org/W4285719527","https://openalex.org/W4388243180"],"related_works":["https://openalex.org/W2806061655","https://openalex.org/W1955737261","https://openalex.org/W2775573077","https://openalex.org/W2911461202","https://openalex.org/W2765354416","https://openalex.org/W2110949356","https://openalex.org/W3032245684","https://openalex.org/W3122854054","https://openalex.org/W2366923372","https://openalex.org/W643060184"],"abstract_inverted_index":{"Tuberculosis":[0],"(TB)":[1],"granulomas":[2,36],"are":[3,37,45,163],"organized":[4],"collections":[5],"of":[6,10,24,35,41,85,103,122,130,134,147,188,216,221,234],"immune":[7,25,86,148,246],"cells":[8,15,87,149],"comprised":[9],"macrophages,":[11],"lymphocytes":[12],"and":[13,33,44,91,96,160,171,207,226,254],"other":[14],"that":[16,60,78,144,167,184],"form":[17],"in":[18,47,117,127,218],"the":[19,101,128,145,185,214,219,235,245],"lung":[20],"as":[21,82,106,154,156],"a":[22,50,65,70,80,83,107,123,151,179],"result":[23],"response":[26,247],"to":[27,109,112,202,204,248],"Mycobacterium":[28],"tuberculosis":[29],"(Mtb)":[30],"infection.":[31,250],"Formation":[32],"maintenance":[34],"essential":[38],"for":[39,262],"control":[40,61,168],"Mtb":[42],"infection":[43],"regulated":[46],"part":[48],"by":[49],"pro-inflammatory":[51],"cytokine,":[52],"tumor":[53],"necrosis":[54],"factor-alpha":[55],"(TNF).":[56],"To":[57,211],"characterize":[58],"mechanisms":[59],"TNF":[62,169,194,198,206,208,217],"availability":[63,170],"within":[64,150,178],"TB":[66,124,152,249,263],"granuloma,":[67],"we":[68,141,182],"developed":[69],"multi-scale":[71],"two":[72,164],"compartment":[73],"partial":[74],"differential":[75],"equation":[76],"model":[77,115,121],"describes":[79],"granuloma":[81,125,153,222,236],"collection":[84],"forming":[88],"concentric":[89],"layers":[90],"includes":[92],"TNF/TNF":[93,157],"receptor":[94,158],"binding":[95,159,195,199,209],"trafficking":[97,162],"processes.":[98],"We":[99],"used":[100],"results":[102,256],"sensitivity":[104],"analysis":[105],"tool":[108],"identify":[110,259],"experiments":[111],"measure":[113],"critical":[114],"parameters":[116],"an":[118],"artificial":[119],"experimental":[120,227,255],"induced":[126],"lungs":[129],"mice":[131],"following":[132],"injection":[133],"mycobacterial":[135],"antigen-coated":[136],"beads.":[137],"Using":[138],"our":[139,224],"model,":[140],"then":[142],"demonstrated":[143],"organization":[146],"well":[155],"intracellular":[161],"important":[165],"factors":[166],"may":[172],"spatially":[173],"coordinate":[174],"TNF-induced":[175],"immunological":[176],"functions":[177],"granuloma.":[180],"Further,":[181],"showed":[183],"neutralization":[186],"power":[187],"TNF-neutralizing":[189],"drugs":[190],"depends":[191],"on":[192,229],"their":[193],"characteristics,":[196],"including":[197],"kinetics,":[200],"ability":[201],"bind":[203],"membrane-bound":[205],"stoichiometry.":[210],"further":[212],"elucidate":[213],"role":[215],"process":[220],"development,":[223],"modeling":[225,253],"findings":[228],"TNF-associated":[230],"molecular":[231],"scale":[232,242],"aspects":[233],"can":[237,257],"be":[238],"incorporated":[239],"into":[240],"larger":[241],"models":[243],"describing":[244],"Ultimately,":[251],"these":[252],"help":[258],"new":[260],"strategies":[261],"disease":[264],"control/therapy.":[265]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":6}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
