{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,16]],"date-time":"2026-05-16T14:44:58Z","timestamp":1778942698749,"version":"3.51.4"},"update-to":[{"DOI":"10.1371\/journal.pcbi.1007752","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2020,6,19]],"date-time":"2020-06-19T00:00:00Z","timestamp":1592524800000}}],"reference-count":88,"publisher":"Public Library of Science (PLoS)","issue":"6","license":[{"start":{"date-parts":[[2020,6,1]],"date-time":"2020-06-01T00:00:00Z","timestamp":1590969600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100009187","name":"Medical Research Foundation","doi-asserted-by":"publisher","award":["MR\/N014855\/1"],"award-info":[{"award-number":["MR\/N014855\/1"]}],"id":[{"id":"10.13039\/501100009187","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["www.ploscompbiol.org"],"crossmark-restriction":false},"short-container-title":["PLoS Comput Biol"],"DOI":"10.1371\/journal.pcbi.1007752","type":"journal-article","created":{"date-parts":[[2020,6,1]],"date-time":"2020-06-01T17:35:55Z","timestamp":1591032955000},"page":"e1007752","update-policy":"https:\/\/doi.org\/10.1371\/journal.pcbi.corrections_policy","source":"Crossref","is-referenced-by-count":7,"title":["Stochastic dynamics of Francisella tularensis infection and replication"],"prefix":"10.1371","volume":"16","author":[{"given":"Jonathan","family":"Carruthers","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7966-5571","authenticated-orcid":true,"given":"Grant","family":"Lythe","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3833-8595","authenticated-orcid":true,"given":"Mart\u00edn","family":"L\u00f3pez-Garc\u00eda","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7486-8927","authenticated-orcid":true,"given":"Joseph","family":"Gillard","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0142-9162","authenticated-orcid":true,"given":"Thomas R.","family":"Laws","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Roman","family":"Lukaszewski","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9828-6737","authenticated-orcid":true,"given":"Carmen","family":"Molina-Par\u00eds","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2020,6,1]]},"reference":[{"issue":"4","key":"pcbi.1007752.ref001","doi-asserted-by":"crossref","first-page":"523","DOI":"10.3201\/eid0504.990411","article-title":"Potential biological weapons threats","volume":"5","author":"MG Kortepeter","year":"1999","journal-title":"Emerging infectious diseases"},{"issue":"21","key":"pcbi.1007752.ref002","doi-asserted-by":"crossref","first-page":"2763","DOI":"10.1001\/jama.285.21.2763","article-title":"Tularemia as a biological weapon: medical and public health management","volume":"285","author":"DT Dennis","year":"2001","journal-title":"Jama"},{"issue":"4","key":"pcbi.1007752.ref003","article-title":"Tularemia","volume":"15","author":"J Ellis","year":"2002","journal-title":"Tularemia Clinical microbiology reviews"},{"issue":"9","key":"pcbi.1007752.ref004","doi-asserted-by":"crossref","first-page":"2922","DOI":"10.1128\/IAI.59.9.2922-2928.1991","article-title":"Live vaccine strain of Francisella tularensis: infection and immunity in mice","volume":"59","author":"AH Fortier","year":"1991","journal-title":"Infection and immunity"},{"key":"pcbi.1007752.ref005","doi-asserted-by":"crossref","first-page":"D48","DOI":"10.1016\/j.vaccine.2009.07.090","article-title":"Francisella tularensis vaccines","volume":"27","author":"PC Oyston","year":"2009","journal-title":"Vaccine"},{"issue":"6","key":"pcbi.1007752.ref006","doi-asserted-by":"crossref","first-page":"1069","DOI":"10.1093\/jac\/dki359","article-title":"In vivo efficacy of fluoroquinolones against systemic tularaemia infection in mice","volume":"56","author":"T Piercy","year":"2005","journal-title":"Journal of Antimicrobial Chemotherapy"},{"issue":"12","key":"pcbi.1007752.ref007","doi-asserted-by":"crossref","first-page":"967","DOI":"10.1038\/nrmicro1045","article-title":"Tularaemia: bioterrorism defence renews interest in Francisella tularensis","volume":"2","author":"PC Oyston","year":"2004","journal-title":"Nature Reviews Microbiology"},{"issue":"6","key":"pcbi.1007752.ref008","doi-asserted-by":"crossref","first-page":"1224","DOI":"10.1189\/jlb.0406287","article-title":"Francisella tularensis LVS evades killing by human neutrophils via inhibition of the respiratory burst and phagosome escape","volume":"80","author":"RL McCaffrey","year":"2006","journal-title":"Journal of Leukocyte Biology"},{"issue":"8","key":"pcbi.1007752.ref009","doi-asserted-by":"crossref","first-page":"921","DOI":"10.1099\/jmm.0.2008\/000653-0","article-title":"Francisella tularensis: unravelling the secrets of an intracellular pathogen","volume":"57","author":"PC Oyston","year":"2008","journal-title":"Journal of Medical Microbiology"},{"issue":"2","key":"pcbi.1007752.ref010","doi-asserted-by":"crossref","first-page":"153","DOI":"10.1038\/ng1499","article-title":"The complete genome sequence of Francisella tularensis, the causative agent of tularemia","volume":"37","author":"P Larsson","year":"2005","journal-title":"Nature Genetics"},{"issue":"2","key":"pcbi.1007752.ref011","doi-asserted-by":"crossref","first-page":"209","DOI":"10.1189\/jlb.0602325","article-title":"The many faces of macrophage activation","volume":"73","author":"DM Mosser","year":"2003","journal-title":"Journal of Leukocyte Biology"},{"issue":"9","key":"pcbi.1007752.ref012","doi-asserted-by":"crossref","first-page":"5892","DOI":"10.1128\/IAI.73.9.5892-5902.2005","article-title":"Francisella tularensis enters macrophages via a novel process involving pseudopod loops","volume":"73","author":"DL Clemens","year":"2005","journal-title":"Infection and Immunity"},{"key":"pcbi.1007752.ref013","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2011.00009","article-title":"The subversion of the immune system by Francisella tularensis","volume":"2","author":"C Bosio","year":"2011","journal-title":"Frontiers in Microbiology"},{"issue":"2","key":"pcbi.1007752.ref014","doi-asserted-by":"crossref","first-page":"383","DOI":"10.1128\/MMBR.05027-11","article-title":"Subversion of host recognition and defense systems by Francisella spp","volume":"76","author":"CL Jones","year":"2012","journal-title":"Microbiology and Molecular Biology Reviews"},{"issue":"1","key":"pcbi.1007752.ref015","doi-asserted-by":"crossref","first-page":"e1003114","DOI":"10.1371\/journal.ppat.1003114","article-title":"Fine tuning inflammation at the front door: macrophage complement receptor 3-mediates phagocytosis and immune suppression for Francisella tularensis","volume":"9","author":"S Dai","year":"2013","journal-title":"PLoS Pathogens"},{"issue":"3","key":"pcbi.1007752.ref016","doi-asserted-by":"crossref","first-page":"e1004706","DOI":"10.1371\/journal.ppat.1004706","article-title":"Production of anti-LPS IgM by B1a B cells depends on IL-1\u03b2 and is protective against lung infection with Francisella tularensis LVS","volume":"11","author":"L del Barrio","year":"2015","journal-title":"PLoS pathogens"},{"key":"pcbi.1007752.ref017","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1016\/j.carres.2013.06.015","article-title":"The atypical lipopolysaccharide of Francisella","volume":"378","author":"NA Okan","year":"2013","journal-title":"Carbohydrate research"},{"issue":"10","key":"pcbi.1007752.ref018","doi-asserted-by":"crossref","first-page":"5940","DOI":"10.1128\/IAI.71.10.5940-5950.2003","article-title":"An attenuated strain of the facultative intracellular bacterium Francisella tularensis can escape the phagosome of monocytic cells","volume":"71","author":"I Golovliov","year":"2003","journal-title":"Infection and immunity"},{"key":"pcbi.1007752.ref019","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2011.00016","article-title":"Innate immune recognition of Francisella tularensis: activation of type-I interferons and the inflammasome","volume":"2","author":"JW Jones","year":"2011","journal-title":"Frontiers in Microbiology"},{"issue":"11","key":"pcbi.1007752.ref020","doi-asserted-by":"crossref","first-page":"e1002757","DOI":"10.1371\/journal.pcbi.1002757","article-title":"A Mathematical Model of CR3\/TLR2 Crosstalk in the Context of Francisella tularensis Infection","volume":"8","author":"R Leander","year":"2012","journal-title":"PLoS Computational Biology"},{"issue":"4","key":"pcbi.1007752.ref021","doi-asserted-by":"crossref","first-page":"a010314","DOI":"10.1101\/cshperspect.a010314","article-title":"Mechanisms of Francisella tularensis intracellular pathogenesis","volume":"3","author":"J Celli","year":"2013","journal-title":"Cold Spring Harbor Perspectives in Medicine"},{"issue":"3","key":"pcbi.1007752.ref022","doi-asserted-by":"crossref","first-page":"319","DOI":"10.1128\/CVI.00636-12","article-title":"Targeting the \u201ccytokine storm\u201d for therapeutic benefit","volume":"20","author":"RV D\u2019Elia","year":"2013","journal-title":"Clin Vaccine Immunol"},{"key":"pcbi.1007752.ref023","doi-asserted-by":"crossref","first-page":"169","DOI":"10.3389\/fcimb.2014.00169","article-title":"Modeling early events in Francisella tularensis pathogenesis","volume":"4","author":"JJ Gillard","year":"2014","journal-title":"Frontiers in cellular and infection microbiology"},{"issue":"1","key":"pcbi.1007752.ref024","doi-asserted-by":"crossref","first-page":"3","DOI":"10.1137\/S0036144598335107","article-title":"Mathematical analysis of HIV-I: dynamics in vivo","volume":"41","author":"AS Perelson","year":"1999","journal-title":"SIAM Review"},{"issue":"2","key":"pcbi.1007752.ref025","doi-asserted-by":"crossref","first-page":"188","DOI":"10.1016\/j.idm.2017.04.002","article-title":"In-host modeling","volume":"2","author":"SM Ciupe","year":"2017","journal-title":"Infectious Disease Modelling"},{"issue":"4","key":"pcbi.1007752.ref026","doi-asserted-by":"crossref","first-page":"1863","DOI":"10.1137\/17M1134019","article-title":"Early HIV Infection Predictions: Role of Viral Replication Errors","volume":"78","author":"JM Conway","year":"2018","journal-title":"SIAM Journal on Applied Mathematics"},{"key":"pcbi.1007752.ref027","article-title":"Progress and trends in mathematical modelling of influenza A virus infections","author":"A Handel","year":"2018","journal-title":"Current Opinion in Systems Biology"},{"key":"pcbi.1007752.ref028","article-title":"Modeling the immune response to HIV infection","author":"JM Conway","year":"2018","journal-title":"Current Opinion in Systems Biology"},{"issue":"2","key":"pcbi.1007752.ref029","doi-asserted-by":"crossref","first-page":"vez018","DOI":"10.1093\/ve\/vez018","article-title":"Within-host infectious disease models accommodating cellular coinfection, with an application to influenza","volume":"5","author":"K Koelle","year":"2019","journal-title":"Virus evolution"},{"issue":"95","key":"pcbi.1007752.ref030","doi-asserted-by":"crossref","first-page":"20140119","DOI":"10.1098\/rsif.2014.0119","article-title":"A dose and time response Markov model for the in-host dynamics of infection with intracellular bacteria following inhalation: with application to Francisella tularensis","volume":"11","author":"R Wood","year":"2014","journal-title":"Journal of The Royal Society Interface"},{"key":"pcbi.1007752.ref031","doi-asserted-by":"crossref","first-page":"18","DOI":"10.1016\/j.mbs.2018.08.010","article-title":"Modeling the macrophage-anthrax spore interaction: Implications for early host-pathogen interactions","volume":"305","author":"B Pantha","year":"2018","journal-title":"Mathematical biosciences"},{"issue":"2","key":"pcbi.1007752.ref032","doi-asserted-by":"crossref","first-page":"e1001058","DOI":"10.1371\/journal.pcbi.1001058","article-title":"Stochastic theory of early viral infection: continuous versus burst production of virions","volume":"7","author":"JE Pearson","year":"2011","journal-title":"PLoS Computational Biology"},{"key":"pcbi.1007752.ref033","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2018.01165","article-title":"A novel stochastic multi-scale model of Francisella tularensis infection to predict risk of infection in a laboratory","volume":"9","author":"J Carruthers","year":"2018","journal-title":"Frontiers in Microbiology"},{"issue":"3","key":"pcbi.1007752.ref034","doi-asserted-by":"crossref","first-page":"477","DOI":"10.2307\/3213507","article-title":"Linear birth and death processes with killing","volume":"19","author":"S Karlin","year":"1982","journal-title":"Journal of Applied Probability"},{"issue":"10","key":"pcbi.1007752.ref035","doi-asserted-by":"crossref","first-page":"e00424","DOI":"10.1128\/IAI.00424-17","article-title":"Complement C3 as a prompt for human macrophage death during infection with Francisella tularensis strain SCHU S4","volume":"85","author":"SR Brock","year":"2017","journal-title":"Infection and Immunity"},{"issue":"7","key":"pcbi.1007752.ref036","doi-asserted-by":"crossref","first-page":"4691","DOI":"10.1128\/IAI.69.7.4691-4694.2001","article-title":"Francisella tularensis induces cytopathogenicity and apoptosis in murine macrophages via a mechanism that requires intracellular bacterial multiplication","volume":"69","author":"XH Lai","year":"2001","journal-title":"Infection and Immunity"},{"issue":"11","key":"pcbi.1007752.ref037","doi-asserted-by":"crossref","first-page":"e349","DOI":"10.1371\/journal.pbio.0040349","article-title":"Intracellular demography and the dynamics of Salmonella enterica infections","volume":"4","author":"SP Brown","year":"2006","journal-title":"PLoS biology"},{"issue":"1","key":"pcbi.1007752.ref038","doi-asserted-by":"crossref","first-page":"73","DOI":"10.1038\/nrmicro2034","article-title":"A dynamic view of the spread and intracellular distribution of Salmonella enterica","volume":"7","author":"P Mastroeni","year":"2009","journal-title":"Nature Reviews Microbiology"},{"issue":"75","key":"pcbi.1007752.ref039","doi-asserted-by":"crossref","first-page":"2696","DOI":"10.1098\/rsif.2012.0163","article-title":"Dynamics of Salmonella infection of macrophages at the single cell level","volume":"9","author":"JR Gog","year":"2012","journal-title":"Journal of The Royal Society Interface"},{"issue":"4","key":"pcbi.1007752.ref040","first-page":"407","article-title":"Sensitivity estimates for nonlinear mathematical models","volume":"1","author":"IM Sobol","year":"1993","journal-title":"Mathematical modelling and computational experiments"},{"key":"pcbi.1007752.ref041","volume-title":"Sensitivity analysis in practice: a guide to assessing scientific models","author":"A Saltelli","year":"2004"},{"issue":"31","key":"pcbi.1007752.ref042","doi-asserted-by":"crossref","first-page":"187","DOI":"10.1098\/rsif.2008.0172","article-title":"Approximate Bayesian computation scheme for parameter inference and model selection in dynamical systems","volume":"6","author":"T Toni","year":"2008","journal-title":"Journal of the Royal Society Interface"},{"issue":"2","key":"pcbi.1007752.ref043","doi-asserted-by":"crossref","first-page":"366","DOI":"10.1090\/S0002-9947-1957-0094854-8","article-title":"The classification of birth and death processes","volume":"86","author":"S Karlin","year":"1957","journal-title":"Transactions of the American Mathematical Society"},{"issue":"1","key":"pcbi.1007752.ref044","doi-asserted-by":"crossref","first-page":"70","DOI":"10.1093\/bib\/bbk006","article-title":"Biological applications of the theory of birth-and-death processes","volume":"7","author":"AS Novozhilov","year":"2006","journal-title":"Briefings in Bioinformatics"},{"issue":"1","key":"pcbi.1007752.ref045","doi-asserted-by":"crossref","first-page":"42","DOI":"10.2307\/1427051","article-title":"The extinction time of a birth, death and catastrophe process and of a related diffusion model","volume":"17","author":"PJ Brockwell","year":"1985","journal-title":"Advances in Applied Probability"},{"issue":"4","key":"pcbi.1007752.ref046","doi-asserted-by":"crossref","first-page":"851","DOI":"10.2307\/3214459","article-title":"The extinction time of a general birth and death process with catastrophes","volume":"23","author":"PJ Brockwell","year":"1986","journal-title":"Journal of Applied Probability"},{"issue":"4","key":"pcbi.1007752.ref047","doi-asserted-by":"crossref","first-page":"709","DOI":"10.2307\/1427020","article-title":"Birth, immigration and catastrophe processes","volume":"14","author":"PJ Brockwell","year":"1982","journal-title":"Advances in Applied Probability"},{"issue":"4","key":"pcbi.1007752.ref048","doi-asserted-by":"crossref","first-page":"1211","DOI":"10.1239\/jap\/1101840567","article-title":"Extinction times for a general birth, death and catastrophe process","volume":"41","author":"B Cairns","year":"2004","journal-title":"Journal of applied probability"},{"issue":"3","key":"pcbi.1007752.ref049","doi-asserted-by":"crossref","first-page":"307","DOI":"10.1007\/BF00276439","article-title":"Limit theorems for the population size of a birth and death process allowing catastrophes","volume":"25","author":"AG Pakes","year":"1987","journal-title":"Journal of Mathematical Biology"},{"issue":"1","key":"pcbi.1007752.ref050","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1016\/0304-4149(89)90060-4","article-title":"The supercritical birth, death and catastrophe process: limit theorems on the set of extinction","volume":"32","author":"AG Pakes","year":"1989","journal-title":"Stochastic Processes and their Applications"},{"issue":"2","key":"pcbi.1007752.ref051","doi-asserted-by":"crossref","first-page":"566","DOI":"10.1239\/jap\/1183667423","article-title":"A note on extinction times for the general birth, death and catastrophe process","volume":"44","author":"P Pollett","year":"2007","journal-title":"Journal of applied probability"},{"issue":"14","key":"pcbi.1007752.ref052","doi-asserted-by":"crossref","first-page":"2248","DOI":"10.1016\/j.spl.2008.01.093","article-title":"A note on birth\u2013death processes with catastrophes","volume":"78","author":"A Di Crescenzo","year":"2008","journal-title":"Statistics & Probability Letters"},{"issue":"5","key":"pcbi.1007752.ref053","doi-asserted-by":"crossref","first-page":"1530","DOI":"10.1016\/j.jspi.2006.09.003","article-title":"Transient probability functions of finite birth\u2013death processes with catastrophes","volume":"137","author":"A Krinik","year":"2007","journal-title":"Journal of statistical planning and inference"},{"issue":"1","key":"pcbi.1007752.ref054","doi-asserted-by":"crossref","first-page":"96","DOI":"10.1016\/j.mbs.2013.02.009","article-title":"Limiting characteristics for finite birth\u2013death-catastrophe processes","volume":"245","author":"A Zeifman","year":"2013","journal-title":"Mathematical Biosciences"},{"issue":"6","key":"pcbi.1007752.ref055","doi-asserted-by":"crossref","first-page":"2400","DOI":"10.1016\/j.spa.2012.03.014","article-title":"Conditions for the existence of quasi-stationary distributions for birth\u2013death processes with killing","volume":"122","author":"EA van Doorn","year":"2012","journal-title":"Stochastic processes and their applications"},{"issue":"1","key":"pcbi.1007752.ref056","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1239\/jap\/1110381380","article-title":"Extinction probability in a birth-death process with killing","volume":"42","author":"EA Van Doorn","year":"2005","journal-title":"Journal of applied probability"},{"issue":"1","key":"pcbi.1007752.ref057","doi-asserted-by":"crossref","first-page":"33","DOI":"10.1016\/j.spl.2004.11.020","article-title":"Birth-death processes with killing","volume":"72","author":"EA Van Doorn","year":"2005","journal-title":"Statistics and Probability Letters"},{"issue":"5","key":"pcbi.1007752.ref058","doi-asserted-by":"crossref","first-page":"225","DOI":"10.1016\/j.micpath.2004.07.002","article-title":"Expression of IglC is necessary for intracellular growth and induction of apoptosis in murine macrophages by Francisella tularensis","volume":"37","author":"XH Lai","year":"2004","journal-title":"Microbial Pathogenesis"},{"issue":"1","key":"pcbi.1007752.ref059","doi-asserted-by":"crossref","first-page":"2153","DOI":"10.4172\/2153-0602.1000125","article-title":"An agent-based model of tularemia","volume":"4","author":"O Attie","year":"2013","journal-title":"J Data Mining Genomics Proteomics"},{"issue":"11","key":"pcbi.1007752.ref060","doi-asserted-by":"crossref","first-page":"627","DOI":"10.3390\/v10110627","article-title":"Causes and Consequences of Spatial Within-Host Viral Spread","volume":"10","author":"M Gallagher","year":"2018","journal-title":"Viruses"},{"issue":"2","key":"pcbi.1007752.ref061","first-page":"69","article-title":"Sobol sensitivity analysis: a tool to guide the development and evaluation of systems pharmacology models","volume":"4","author":"XY Zhang","year":"2015","journal-title":"CPT: pharmacometrics & systems pharmacology"},{"issue":"5","key":"pcbi.1007752.ref062","doi-asserted-by":"crossref","first-page":"333","DOI":"10.1038\/nrmicro2112","article-title":"Life on the inside: the intracellular lifestyle of cytosolic bacteria","volume":"7","author":"K Ray","year":"2009","journal-title":"Nature Reviews Microbiology"},{"issue":"7","key":"pcbi.1007752.ref063","doi-asserted-by":"crossref","first-page":"4538","DOI":"10.4049\/jimmunol.178.7.4538","article-title":"Active suppression of the pulmonary immune response by Francisella tularensis Schu4","volume":"178","author":"CM Bosio","year":"2007","journal-title":"The Journal of Immunology"},{"issue":"12","key":"pcbi.1007752.ref064","doi-asserted-by":"crossref","first-page":"7206","DOI":"10.1128\/AAC.01586-16","article-title":"A Bioluminescent Francisella tularensis SCHU S4 Strain Enables Noninvasive Tracking of Bacterial Dissemination and the Evaluation of Antibiotics in an Inhalational Mouse Model of Tularemia","volume":"60","author":"CA Hall","year":"2016","journal-title":"Antimicrobial agents and chemotherapy"},{"issue":"2","key":"pcbi.1007752.ref065","first-page":"409","article-title":"Division and death rates of Salmonella typhimurium inside macrophages: use of penicillin as a probe","volume":"110","author":"D Lowrie","year":"1979","journal-title":"Microbiology"},{"issue":"1","key":"pcbi.1007752.ref066","doi-asserted-by":"crossref","first-page":"81","DOI":"10.1016\/0025-5564(93)90043-A","article-title":"Dynamics of HIV infection of CD4+ T cells","volume":"114","author":"AS Perelson","year":"1993","journal-title":"Mathematical Biosciences"},{"key":"pcbi.1007752.ref067","doi-asserted-by":"crossref","DOI":"10.1093\/oso\/9780198504184.001.0001","volume-title":"Virus dynamics: mathematical principles of immunology and virology: mathematical principles of immunology and virology","author":"M Nowak","year":"2000"},{"issue":"12","key":"pcbi.1007752.ref068","doi-asserted-by":"crossref","first-page":"1178","DOI":"10.1002\/bies.10196","article-title":"Mathematical models of HIV pathogenesis and treatment","volume":"24","author":"D Wodarz","year":"2002","journal-title":"BioEssays"},{"issue":"7","key":"pcbi.1007752.ref069","doi-asserted-by":"crossref","first-page":"e1002593","DOI":"10.1371\/journal.pcbi.1002593","article-title":"Which of our modeling predictions are robust?","volume":"8","author":"RJ De Boer","year":"2012","journal-title":"PLoS computational biology"},{"issue":"1","key":"pcbi.1007752.ref070","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1111\/imr.12700","article-title":"Introduction to modeling viral infections and immunity","volume":"285","author":"AS Perelson","year":"2018","journal-title":"Immunological Reviews"},{"issue":"27","key":"pcbi.1007752.ref071","doi-asserted-by":"crossref","first-page":"11246","DOI":"10.1073\/pnas.0904846106","article-title":"Modeling the immune rheostat of macrophages in the lung in response to infection","volume":"106","author":"J Day","year":"2009","journal-title":"PNAS"},{"key":"pcbi.1007752.ref072","doi-asserted-by":"crossref","first-page":"122","DOI":"10.3389\/fcimb.2017.00122","article-title":"Francisella tularensis susceptibility to antibiotics: a comprehensive review of the data obtained in vitro and in animal models","volume":"7","author":"Y Caspar","year":"2017","journal-title":"Frontiers in cellular and infection microbiology"},{"key":"pcbi.1007752.ref073","doi-asserted-by":"crossref","first-page":"170","DOI":"10.1016\/j.coisb.2017.05.014","article-title":"A review of computational and mathematical modeling contributions to our understanding of Mycobacterium tuberculosis within-host infection and treatment","volume":"3","author":"D Kirschner","year":"2017","journal-title":"Current opinion in systems biology"},{"issue":"3","key":"pcbi.1007752.ref074","doi-asserted-by":"crossref","first-page":"032702","DOI":"10.1103\/PhysRevE.89.032702","article-title":"Using multitype branching processes to quantify statistics of disease outbreaks in zoonotic epidemics","volume":"89","author":"S Singh","year":"2014","journal-title":"Physical Review E"},{"issue":"1","key":"pcbi.1007752.ref075","doi-asserted-by":"crossref","first-page":"15054","DOI":"10.1038\/s41598-018-32961-7","article-title":"First passage events in biological systems with non-exponential inter-event times","volume":"8","author":"M Castro","year":"2018","journal-title":"Scientific reports"},{"issue":"Pt 9","key":"pcbi.1007752.ref076","doi-asserted-by":"crossref","first-page":"1107","DOI":"10.1099\/jmm.0.020669-0","article-title":"Characterization of lethal inhalational infection with Francisella tularensis in the common marmoset (Callithrix jacchus)","volume":"59","author":"M Nelson","year":"2010","journal-title":"Journal of Medical Microbiology"},{"key":"pcbi.1007752.ref077","doi-asserted-by":"crossref","first-page":"91","DOI":"10.3389\/fmicb.2017.00091","article-title":"Inhaled liposomal ciprofloxacin protects against a lethal infection in a murine model of pneumonic plague","volume":"8","author":"KA Hamblin","year":"2017","journal-title":"Frontiers in Microbiology"},{"issue":"3","key":"pcbi.1007752.ref078","first-page":"437","article-title":"A mobile form of the Henderson apparatus","volume":"67","author":"H Druett","year":"1969","journal-title":"Epidemiology and Infection"},{"issue":"4","key":"pcbi.1007752.ref079","first-page":"287","article-title":"The efficiency of various liquid impinger samplers in bacterial aerosols","volume":"14","author":"K May","year":"1957","journal-title":"British Journal of Industrial Medicine"},{"issue":"2","key":"pcbi.1007752.ref080","doi-asserted-by":"crossref","first-page":"164","DOI":"10.1016\/j.micpath.2007.08.009","article-title":"Protection afforded against aerosol challenge by systemic immunisation with inactivated Francisella tularensis live vaccine strain (LVS)","volume":"44","author":"J Eyles","year":"2008","journal-title":"Microbial pathogenesis"},{"issue":"2","key":"pcbi.1007752.ref081","first-page":"249","article-title":"A method for measuring the retained dose in experiments on airborne infection","volume":"60","author":"G Harper","year":"1962","journal-title":"Epidemiology & Infection"},{"issue":"12","key":"pcbi.1007752.ref082","doi-asserted-by":"crossref","first-page":"953","DOI":"10.1038\/nri1733","article-title":"Monocyte and macrophage heterogeneity","volume":"5","author":"S Gordon","year":"2005","journal-title":"Nature Reviews Immunology"},{"issue":"12","key":"pcbi.1007752.ref083","doi-asserted-by":"crossref","first-page":"958","DOI":"10.1038\/nri2448","article-title":"Exploring the full spectrum of macrophage activation","volume":"8","author":"DM Mosser","year":"2008","journal-title":"Nature Reviews Immunology"},{"issue":"11","key":"pcbi.1007752.ref084","doi-asserted-by":"crossref","first-page":"723","DOI":"10.1038\/nri3073","article-title":"Protective and pathogenic functions of macrophage subsets","volume":"11","author":"PJ Murray","year":"2011","journal-title":"Nature Reviews Immunology"},{"issue":"1","key":"pcbi.1007752.ref085","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1186\/s12915-017-0392-4","article-title":"Tissue macrophages: heterogeneity and functions","volume":"15","author":"S Gordon","year":"2017","journal-title":"BMC biology"},{"issue":"4","key":"pcbi.1007752.ref086","doi-asserted-by":"crossref","first-page":"463","DOI":"10.1016\/j.jtbi.2003.11.023","article-title":"The human immune response to Mycobacterium tuberculosis in lung and lymph node","volume":"227","author":"S Marino","year":"2004","journal-title":"Journal of Theoretical Biology"},{"issue":"9","key":"pcbi.1007752.ref087","doi-asserted-by":"crossref","first-page":"4222","DOI":"10.1128\/AAC.01885-12","article-title":"Targeting the \u201cRising DAMP\u201d during a Francisella tularensis infection","volume":"57","author":"RV D\u2019Elia","year":"2013","journal-title":"Antimicrobial agents and chemotherapy"},{"key":"pcbi.1007752.ref088","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1146\/annurev.physchem.58.032806.104637","article-title":"Stochastic simulation of chemical kinetics","volume":"58","author":"DT Gillespie","year":"2007","journal-title":"Annu Rev Phys Chem"}],"updated-by":[{"DOI":"10.1371\/journal.pcbi.1007752","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2020,6,19]],"date-time":"2020-06-19T00:00:00Z","timestamp":1592524800000}}],"container-title":["PLOS Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1007752","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,8,6]],"date-time":"2024-08-06T19:41:49Z","timestamp":1722973309000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pcbi.1007752"}},"subtitle":[],"editor":[{"given":"James","family":"O\u2019Dwyer","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2020,6,1]]},"references-count":88,"journal-issue":{"issue":"6","published-online":{"date-parts":[[2020,6,1]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pcbi.1007752","relation":{"new_version":[{"id-type":"doi","id":"10.1371\/journal.pcbi.1007752","asserted-by":"object"}]},"ISSN":["1553-7358"],"issn-type":[{"value":"1553-7358","type":"electronic"}],"subject":[],"published":{"date-parts":[[2020,6,1]]}}}