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James O. Lloyd-Smith - Publications

2008- Ecology & Evolutionary Biology University of California, Los Angeles, Los Angeles, CA 
Infectious disease dynamics, Population ecology

74 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Pepin KM, Hopken MW, Shriner SA, Spackman E, Abdo Z, Parrish C, Riley S, Lloyd-Smith JO, Piaggio AJ. Improving risk assessment of the emergence of novel influenza A viruses by incorporating environmental surveillance. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 374: 20180346. PMID 31401963 DOI: 10.1098/rstb.2018.0346  0.36
2019 Becker DJ, Washburne AD, Faust CL, Pulliam JRC, Mordecai EA, Lloyd-Smith JO, Plowright RK. Dynamic and integrative approaches to understanding pathogen spillover. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 374: 20190014. PMID 31401959 DOI: 10.1098/rstb.2019.0014  0.36
2017 Plowright RK, Parrish CR, McCallum H, Hudson PJ, Ko AI, Graham AL, Lloyd-Smith JO. Pathways to zoonotic spillover. Nature Reviews. Microbiology. PMID 28555073 DOI: 10.1038/nrmicro.2017.45  0.36
2017 Pepin KM, Kay SL, Golas BD, Shriner SS, Gilbert AT, Miller RS, Graham AL, Riley S, Cross PC, Samuel MD, Hooten MB, Hoeting JA, Lloyd-Smith JO, Webb CT, Buhnerkempe MG. Inferring infection hazard in wildlife populations by linking data across individual and population scales. Ecology Letters. PMID 28090753 DOI: 10.1111/ele.12732  1
2016 Wu N, Dai L, Olson CA, Lloyd-Smith JO, Sun R. Adaptation in protein fitness landscapes is facilitated by indirect paths. Elife. 5. PMID 27391790 DOI: 10.7554/eLife.16965  1
2016 Graham AL, Nussey DH, Lloyd-Smith JO, Longbottom D, Maley M, Pemberton JM, Pilkington JG, Prager KC, Smith L, Watt KA, Wilson K, McNEILLY TN, Brülisauer F. Exposure to viral and bacterial pathogens among Soay sheep (Ovis aries) of the St Kilda archipelago. Epidemiology and Infection. 1-10. PMID 26829883 DOI: 10.1017/S0950268816000017  1
2016 Muthukrishnan R, Lloyd-Smith JO, Fong P. Mechanisms of resilience: Empirically quantified positive feedbacks produce alternate stable states dynamics in a model of a tropical reef Journal of Ecology. DOI: 10.1111/1365-2745.12631  1
2015 Buhnerkempe MG, Gostic K, Park M, Ahsan P, Belser JA, Lloyd-Smith JO. Mapping influenza transmission in the ferret model to transmission in humans. Elife. 4. PMID 26329460 DOI: 10.7554/eLife.07969  1
2015 Ke R, Loverdo C, Qi H, Sun R, Lloyd-Smith JO. Rational Design and Adaptive Management of Combination Therapies for Hepatitis C Virus Infection. Plos Computational Biology. 11: e1004040. PMID 26125950 DOI: 10.1371/journal.pcbi.1004040  1
2015 Biek R, Pybus OG, Lloyd-Smith JO, Didelot X. Measurably evolving pathogens in the genomic era. Trends in Ecology & Evolution. 30: 306-313. PMID 25887947 DOI: 10.1016/j.tree.2015.03.009  1
2015 Lloyd-Smith JO, Mollison D, Metcalf CJ, Klepac P, Heesterbeek JA. Challenges in modelling infectious disease dynamics: preface. Epidemics. 10: iii-iv. PMID 25843395 DOI: 10.1016/j.epidem.2015.02.001  1
2015 Gog JR, Pellis L, Wood JL, McLean AR, Arinaminpathy N, Lloyd-Smith JO. Seven challenges in modeling pathogen dynamics within-host and across scales. Epidemics. 10: 45-8. PMID 25843382 DOI: 10.1016/j.epidem.2014.09.009  1
2015 Metcalf CJ, Birger RB, Funk S, Kouyos RD, Lloyd-Smith JO, Jansen VA. Five challenges in evolution and infectious diseases. Epidemics. 10: 40-4. PMID 25843381 DOI: 10.1016/j.epidem.2014.12.003  1
2015 Lloyd-Smith JO, Funk S, McLean AR, Riley S, Wood JL. Nine challenges in modelling the emergence of novel pathogens. Epidemics. 10: 35-9. PMID 25843380 DOI: 10.1016/j.epidem.2014.09.002  1
2015 Buhnerkempe MG, Roberts MG, Dobson AP, Heesterbeek H, Hudson PJ, Lloyd-Smith JO. Eight challenges in modelling disease ecology in multi-host, multi-agent systems. Epidemics. 10: 26-30. PMID 25843378 DOI: 10.1016/j.epidem.2014.10.001  1
2015 Heesterbeek H, Anderson RM, Andreasen V, Bansal S, De Angelis D, Dye C, Eames KT, Edmunds WJ, Frost SD, Funk S, Hollingsworth TD, House T, Isham V, Klepac P, Lessler J, ... Lloyd-Smith JO, et al. Modeling infectious disease dynamics in the complex landscape of global health. Science (New York, N.Y.). 347: aaa4339. PMID 25766240 DOI: 10.1126/science.aaa4339  1
2015 Gostic KM, Kucharski AJ, Lloyd-Smith JO. Effectiveness of traveller screening for emerging pathogens is shaped by epidemiology and natural history of infection. Elife. 4. PMID 25695520 DOI: 10.7554/eLife.05564  1
2015 Prager KC, Alt DP, Buhnerkempe MG, Greig DJ, Galloway RL, Wu Q, Gulland FMD, Lloyd-Smith JO. Antibiotic Efficacy in Eliminating Leptospiruria in California Sea Lions (Zalophus californianus) Stranding with Leptospirosis Aquatic Mammals. 41: 203-212. DOI: 10.1578/AM.41.2.2015.203  1
2014 Russell CA, Kasson PM, Donis RO, Riley S, Dunbar J, Rambaut A, Asher J, Burke S, Davis CT, Garten RJ, Gnanakaran S, Hay SI, Herfst S, Lewis NS, Lloyd-Smith JO, et al. Improving pandemic influenza risk assessment. Elife. 3: e03883. PMID 25321142 DOI: 10.7554/eLife.03883  0.36
2014 Wu Q, Prager KC, Goldstein T, Alt DP, Galloway RL, Zuerner RL, Lloyd-Smith JO, Schwacke L. Development of a real-time PCR for the detection of pathogenic Leptospira spp. in California sea lions. Diseases of Aquatic Organisms. 110: 165-72. PMID 25114040 DOI: 10.3354/dao02752  1
2014 Barclay VC, Kennedy DA, Weaver VC, Sim D, Lloyd-Smith JO, Read AF. The effect of immunodeficiency on the evolution of virulence: an experimental test with the rodent malaria Plasmodium chabaudi. The American Naturalist. 184: S47-57. PMID 25061677 DOI: 10.1086/676887  1
2014 Blumberg S, Enanoria WT, Lloyd-Smith JO, Lietman TM, Porco TC. Identifying postelimination trends for the introduction and transmissibility of measles in the United States. American Journal of Epidemiology. 179: 1375-82. PMID 24786800 DOI: 10.1093/aje/kwu068  1
2014 Viana M, Mancy R, Biek R, Cleaveland S, Cross PC, Lloyd-Smith JO, Haydon DT. Assembling evidence for identifying reservoirs of infection. Trends in Ecology & Evolution. 29: 270-9. PMID 24726345 DOI: 10.1016/j.tree.2014.03.002  1
2014 Qi H, Olson CA, Wu NC, Ke R, Loverdo C, Chu V, Truong S, Remenyi R, Chen Z, Du Y, Su SY, Al-Mawsawi LQ, Wu TT, Chen SH, Lin CY, ... ... Lloyd-Smith JO, et al. A quantitative high-resolution genetic profile rapidly identifies sequence determinants of hepatitis C viral fitness and drug sensitivity. Plos Pathogens. 10: e1004064. PMID 24722365 DOI: 10.1371/journal.ppat.1004064  1
2014 Ke R, Loverdo C, Qi H, Olson CA, Wu NC, Sun R, Lloyd-Smith JO. Modelling clinical data shows active tissue concentration of daclatasvir is 10-fold lower than its plasma concentration. The Journal of Antimicrobial Chemotherapy. 69: 724-7. PMID 24169581 DOI: 10.1093/jac/dkt423  1
2013 Pepin KM, Lloyd-Smith JO, Webb CT, Holcomb K, Zhu H, Guan Y, Riley S. Minimizing the threat of pandemic emergence from avian influenza in poultry systems. Bmc Infectious Diseases. 13: 592. PMID 24341669 DOI: 10.1186/1471-2334-13-592  1
2013 Blumberg S, Lloyd-Smith JO. Comparing methods for estimating R0 from the size distribution of subcritical transmission chains. Epidemics. 5: 131-45. PMID 24021520 DOI: 10.1016/j.epidem.2013.05.002  1
2013 Thomassen HA, Fuller T, Asefi-Najafabady S, Shiplacoff JA, Mulembakani PM, Blumberg S, Johnston SC, Kisalu NK, Kinkela TL, Fair JN, Wolfe ND, Shongo RL, LeBreton M, Meyer H, Wright LL, ... ... Lloyd-Smith JO, et al. Pathogen-host associations and predicted range shifts of human monkeypox in response to climate change in central Africa. Plos One. 8: e66071. PMID 23935820 DOI: 10.1371/journal.pone.0066071  1
2013 Loverdo C, Lloyd-Smith JO. Evolutionary invasion and escape in the presence of deleterious mutations. Plos One. 8: e68179. PMID 23874532 DOI: 10.1371/journal.pone.0068179  1
2013 Lloyd-Smith JO. Vacated niches, competitive release and the community ecology of pathogen eradication. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 368: 20120150. PMID 23798698 DOI: 10.1098/rstb.2012.0150  1
2013 Loverdo C, Lloyd-Smith JO. Intergenerational phenotypic mixing in viral evolution. Evolution; International Journal of Organic Evolution. 67: 1815-22. PMID 23730772 DOI: 10.1111/evo.12048  1
2013 Blumberg S, Lloyd-Smith JO. Inference of R(0) and transmission heterogeneity from the size distribution of stuttering chains. Plos Computational Biology. 9: e1002993. PMID 23658504 DOI: 10.1371/journal.pcbi.1002993  1
2013 Strelioff CC, Vijaykrishna D, Riley S, Guan Y, Peiris JS, Lloyd-Smith JO. Inferring patterns of influenza transmission in swine from multiple streams of surveillance data. Proceedings. Biological Sciences / the Royal Society. 280: 20130872. PMID 23658205 DOI: 10.1098/rspb.2013.0872  1
2013 Ke R, Aaskov J, Holmes EC, Lloyd-Smith JO. Phylodynamic analysis of the emergence and epidemiological impact of transmissible defective dengue viruses. Plos Pathogens. 9: e1003193. PMID 23468631 DOI: 10.1371/journal.ppat.1003193  1
2013 Prager KC, Greig DJ, Alt DP, Galloway RL, Hornsby RL, Palmer LJ, Soper J, Wu Q, Zuerner RL, Gulland FM, Lloyd-Smith JO. Asymptomatic and chronic carriage of Leptospira interrogans serovar Pomona in California sea lions (Zalophus californianus). Veterinary Microbiology. 164: 177-83. PMID 23419822 DOI: 10.1016/j.vetmic.2013.01.032  1
2013 Bulterys PL, Le T, Quang VM, Nelson KE, Lloyd-Smith JO. Environmental predictors and incubation period of AIDS-associated penicillium marneffei infection in Ho Chi Minh City, Vietnam. Clinical Infectious Diseases : An Official Publication of the Infectious Diseases Society of America. 56: 1273-9. PMID 23386634 DOI: 10.1093/cid/cit058  1
2013 Park M, Loverdo C, Schreiber SJ, Lloyd-Smith JO. Multiple scales of selection influence the evolutionary emergence of novel pathogens. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 368: 20120333. PMID 23382433 DOI: 10.1098/rstb.2012.0333  1
2012 Karesh WB, Dobson A, Lloyd-Smith JO, Lubroth J, Dixon MA, Bennett M, Aldrich S, Harrington T, Formenty P, Loh EH, Machalaba CC, Thomas MJ, Heymann DL. Ecology of zoonoses: natural and unnatural histories. Lancet. 380: 1936-45. PMID 23200502 DOI: 10.1016/S0140-6736(12)61678-X  1
2012 Ke R, Lloyd-Smith JO. Evolutionary analysis of human immunodeficiency virus type 1 therapies based on conditionally replicating vectors. Plos Computational Biology. 8: e1002744. PMID 23133349 DOI: 10.1371/journal.pcbi.1002744  1
2012 Loverdo C, Park M, Schreiber SJ, Lloyd-Smith JO. Influence of viral replication mechanisms on within-host evolutionary dynamics. Evolution; International Journal of Organic Evolution. 66: 3462-71. PMID 23106710 DOI: 10.1111/j.1558-5646.2012.01687.x  1
2011 Metzger VT, Lloyd-Smith JO, Weinberger LS. Autonomous targeting of infectious superspreaders using engineered transmissible therapies. Plos Computational Biology. 7: e1002015. PMID 21483468 DOI: 10.1371/journal.pcbi.1002015  1
2011 Fuller T, Thomassen HA, Mulembakani PM, Johnston SC, Lloyd-Smith JO, Kisalu NK, Lutete TK, Blumberg S, Fair JN, Wolfe ND, Shongo RL, Formenty P, Meyer H, Wright LL, Muyembe JJ, et al. Using remote sensing to map the risk of human monkeypox virus in the Congo Basin. Ecohealth. 8: 14-25. PMID 21069425 DOI: 10.1007/s10393-010-0355-5  1
2011 Raffel TR, Lloyd-Smith JO, Sessions SK, Hudson PJ, Rohr JR. Does the early frog catch the worm? Disentangling potential drivers of a parasite age-intensity relationship in tadpoles. Oecologia. 165: 1031-42. PMID 20852894 DOI: 10.1007/s00442-010-1776-0  1
2010 Pepin KM, Lass S, Pulliam JR, Read AF, Lloyd-Smith JO. Identifying genetic markers of adaptation for surveillance of viral host jumps. Nature Reviews. Microbiology. 8: 802-13. PMID 20938453 DOI: 10.1038/nrmicro2440  1
2010 Lloyd-Smith JO. Modeling density dependence in heterogeneous landscapes: dispersal as a case study. Journal of Theoretical Biology. 265: 160-6. PMID 20346364 DOI: 10.1016/j.jtbi.2010.03.032  1
2010 Volkov I, Pepin KM, Lloyd-Smith JO, Banavar JR, Grenfell BT. Synthesizing within-host and population-level selective pressures on viral populations: the impact of adaptive immunity on viral immune escape. Journal of the Royal Society, Interface / the Royal Society. 7: 1311-8. PMID 20335194 DOI: 10.1098/rsif.2009.0560  1
2010 Sánchez MS, Lloyd-Smith JO, Getz WM. Monitoring linked epidemics: the case of tuberculosis and HIV. Plos One. 5: e8796. PMID 20098716 DOI: 10.1371/journal.pone.0008796  1
2009 Sánchez MS, Lloyd-Smith JO, Williams BG, Porco TC, Ryan SJ, Borgdorff MW, Mansoer J, Dye C, Getz WM. Incongruent HIV and tuberculosis co-dynamics in Kenya: interacting epidemics monitor each other. Epidemics. 1: 14-20. PMID 21352748 DOI: 10.1016/j.epidem.2008.08.001  1
2009 Hahn JA, Wylie D, Dill J, Sanchez MS, Lloyd-Smith JO, Page-Shafer K, Getz WM. Potential impact of vaccination on the hepatitis C virus epidemic in injection drug users. Epidemics. 1: 47-57. PMID 20445816 DOI: 10.1016/j.epidem.2008.10.002  1
2009 Lloyd-Smith JO, George D, Pepin KM, Pitzer VE, Pulliam JR, Dobson AP, Hudson PJ, Grenfell BT. Epidemic dynamics at the human-animal interface. Science (New York, N.Y.). 326: 1362-7. PMID 19965751 DOI: 10.1126/science.1177345  1
2009 Polansky L, de Valpine P, Lloyd-Smith JO, Getz WM. Likelihood ridges and multimodality in population growth rate models. Ecology. 90: 2313-20. PMID 19739392 DOI: 10.1890/08-1461.1  1
2009 Schreiber SJ, Lloyd-Smith JO. Invasion dynamics in spatially heterogeneous environments. The American Naturalist. 174: 490-505. PMID 19737109 DOI: 10.1086/605405  1
2008 Auvert B, Marseille E, Korenromp EL, Lloyd-Smith J, Sitta R, Taljaard D, Pretorius C, Williams B, Kahn JG. Estimating the resources needed and savings anticipated from roll-out of adult male circumcision in Sub-Saharan Africa. Plos One. 3: e2679. PMID 18682725 DOI: 10.1371/journal.pone.0002679  1
2008 Sánchez MS, Lloyd-Smith JO, Porco TC, Williams BG, Borgdorff MW, Mansoer J, Salomon JA, Getz WM. Impact of HIV on novel therapies for tuberculosis control. Aids (London, England). 22: 963-72. PMID 18453856 DOI: 10.1097/QAD.0b013e3282f7cb4b  1
2008 Lloyd-Smith JO, Poss M, Grenfell BT. HIV-1/parasite co-infection and the emergence of new parasite strains. Parasitology. 135: 795-806. PMID 18371236 DOI: 10.1017/S0031182008000292  1
2008 Polansky L, de Valpine P, Lloyd-Smith JO, Getz WM. Parameter estimation in a generalized discrete-time model of density dependence Theoretical Ecology. 1: 221-229. DOI: 10.1007/s12080-008-0022-4  1
2007 Lloyd-Smith JO, Greig DJ, Hietala S, Ghneim GS, Palmer L, St Leger J, Grenfell BT, Gulland FM. Cyclical changes in seroprevalence of leptospirosis in California sea lions: endemic and epidemic disease in one host species? Bmc Infectious Diseases. 7: 125. PMID 17986335 DOI: 10.1186/1471-2334-7-125  1
2007 Graham AL, Cattadori IM, Lloyd-Smith JO, Ferrari MJ, Bjørnstad ON. Transmission consequences of coinfection: cytokines writ large? Trends in Parasitology. 23: 284-91. PMID 17466597 DOI: 10.1016/  1
2007 Lloyd-Smith JO. Maximum likelihood estimation of the negative binomial dispersion parameter for highly overdispersed data, with applications to infectious diseases. Plos One. 2: e180. PMID 17299582 DOI: 10.1371/journal.pone.0000180  1
2007 Cross PC, Johnson PL, Lloyd-Smith JO, Getz WM. Utility of R0 as a predictor of disease invasion in structured populations. Journal of the Royal Society, Interface / the Royal Society. 4: 315-24. PMID 17251146 DOI: 10.1098/rsif.2006.0185  1
2006 Salomon JA, Lloyd-Smith JO, Getz WM, Resch S, Sánchez MS, Porco TC, Borgdorff MW. Prospects for advancing tuberculosis control efforts through novel therapies. Plos Medicine. 3: e273. PMID 16866578 DOI: 10.1371/journal.pmed.0030273  1
2006 Williams BG, Lloyd-Smith JO, Gouws E, Hankins C, Getz WM, Hargrove J, de Zoysa I, Dye C, Auvert B. The potential impact of male circumcision on HIV in Sub-Saharan Africa. Plos Medicine. 3: e262. PMID 16822094 DOI: 10.1371/journal.pmed.0030262  1
2006 Bar-David S, Lloyd-Smith JO, Getz WM. Dynamics and management of infectious disease in colonizing populations. Ecology. 87: 1215-24. PMID 16761600 DOI: 10.1890/0012-9658(2006)87[1215:DAMOID]2.0.CO;2  1
2006 Getz WM, Lloyd-Smith JO. Comment on "On the regulation of populations of mammals, birds, fish, and insects" I. Science (New York, N.Y.). 311: 1100; author reply 1. PMID 16497915 DOI: 10.1126/science.1121388  1
2005 Lloyd-Smith JO, Cross PC, Briggs CJ, Daugherty M, Getz WM, Latto J, Sanchez MS, Smith AB, Swei A. Should we expect population thresholds for wildlife disease? Trends in Ecology & Evolution. 20: 511-9. PMID 16701428 DOI: 10.1016/j.tree.2005.07.004  1
2005 Lloyd-Smith JO, Schreiber SJ, Kopp PE, Getz WM. Superspreading and the effect of individual variation on disease emergence. Nature. 438: 355-9. PMID 16292310 DOI: 10.1038/nature04153  1
2005 Bauch CT, Lloyd-Smith JO, Coffee MP, Galvani AP. Dynamically modeling SARS and other newly emerging respiratory illnesses: past, present, and future. Epidemiology (Cambridge, Mass.). 16: 791-801. PMID 16222170 DOI: 10.1097/01.ede.0000181633.80269.4c  1
2005 Porco TC, Lloyd-Smith JO, Gross KL, Galvani AP. The effect of treatment on pathogen virulence. Journal of Theoretical Biology. 233: 91-102. PMID 15615623 DOI: 10.1016/j.jtbi.2004.09.009  1
2005 Cross PC, Lloyd-Smith JO, Johnson PLF, Getz WM. Duelling timescales of host movement and disease recovery determine invasion of disease in structured populations Ecology Letters. 8: 587-595. DOI: 10.1111/j.1461-0248.2005.00760.x  1
2005 Cross PC, Lloyd-Smith JO, Getz WM. Disentangling association patterns in fission-fusion societies using African buffalo as an example Animal Behaviour. 69: 499-506. DOI: 10.1016/j.anbehav.2004.08.006  1
2004 Lloyd-Smith JO, Getz WM, Westerhoff HV. Frequency-dependent incidence in models of sexually transmitted diseases: portrayal of pair-based transmission and effects of illness on contact behaviour. Proceedings. Biological Sciences / the Royal Society. 271: 625-34. PMID 15156921 DOI: 10.1098/rspb.2003.2632  1
2004 Cross PC, Lloyd-Smith JO, Bowers JA, Hay CT, Hofmeyr M, Getz WM. Integrating association data and disease dynamics in a social ungulate: Bovine tuberculosis in African buffalo in the Kruger National Park Annales Zoologici Fennici. 41: 879-892.  1
2003 Lloyd-Smith JO, Galvani AP, Getz WM. Curtailing transmission of severe acute respiratory syndrome within a community and its hospital. Proceedings. Biological Sciences / the Royal Society. 270: 1979-89. PMID 14561285 DOI: 10.1098/rspb.2003.2481  1
1999 Crawford MA, Bloom M, Broadhurst CL, Schmidt WF, Cunnane SC, Galli C, Gehbremeskel K, Linseisen F, Lloyd-Smith J, Parkingtor J. Evidence for the unique function of docosahexaenoic acid during the evolution of the modern hominid brain Lipids. 34: S39-S47. PMID 10419087 DOI: 10.1007/BF02562227  1
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