TY - JOUR AU - Fauci, A. S. PY - 1993 DA - 1993// TI - HIV infection is active and progressive in lymphoid tissue during the clinically latent stage of disease JO - Nature VL - 362 UR - https://doi.org/10.1038/362355a0 DO - 10.1038/362355a0 ID - Fauci1993 ER - TY - JOUR AU - Tierney, R. AU - Steven, N. AU - Young, L. AU - Rickinson, A. PY - 1994 DA - 1994// TI - Epstein-Barr virus latency in blood mononuclear cells: analysis of viral gene transcription during primary infection and in the carrier state JO - J Virol VL - 68 ID - Tierney1994 ER - TY - JOUR AU - Roizman, B. AU - Sears, A. E. PY - 1987 DA - 1987// TI - An inquiry into the mechanisms of herpes simplex virus latency JO - Annu Rev Microbiol VL - 41 UR - https://doi.org/10.1146/annurev.mi.41.100187.002551 DO - 10.1146/annurev.mi.41.100187.002551 ID - Roizman1987 ER - TY - JOUR AU - Deshmane, S. AU - Fraser, N. PY - 1989 DA - 1989// TI - During latency, herpes simplex virus type 1 DNA is associated with nucleosomes in a chromatin structure JO - J Virol VL - 63 ID - Deshmane1989 ER - TY - JOUR AU - Carrell, R. W. AU - Gooptu, B. PY - 1998 DA - 1998// TI - Conformational changes and disease—serpins, prions and Alzheimer’s JO - Curr Opin Struct Biol VL - 8 UR - https://doi.org/10.1016/S0959-440X(98)80101-2 DO - 10.1016/S0959-440X(98)80101-2 ID - Carrell1998 ER - TY - JOUR AU - Pinxteren, L. A. AU - Cassidy, J. P. AU - Smedegaard, B. H. AU - Agger, E. M. AU - Andersen, P. PY - 2000 DA - 2000// TI - Control of latent Mycobacterium tuberculosis infection is dependent on CD8 T cells JO - Eur J Immunol VL - 30 UR - https://doi.org/3.0.CO;2-4 DO - 3.0.CO;2-4 ID - Pinxteren2000 ER - TY - JOUR AU - Hernandez-Pando, R. AU - Jeyanathan, M. AU - Mengistu, G. AU - Aguilar, D. AU - Orozco, H. AU - Harboe, M. AU - Rook, G. AU - Bjune, G. PY - 2000 DA - 2000// TI - Persistence of DNA from Mycobacterium tuberculosis in superficially normal lung tissue during latent infection JO - Lancet VL - 356 UR - https://doi.org/10.1016/S0140-6736(00)03493-0 DO - 10.1016/S0140-6736(00)03493-0 ID - Hernandez-Pando2000 ER - TY - JOUR AU - Lagarias, D. M. AU - Radke, K. PY - 1989 DA - 1989// TI - Transcriptional activation of bovine leukemia virus in blood cells from experimentally infected, asymptomatic sheep with latent infections JO - J Virol VL - 63 ID - Lagarias1989 ER - TY - JOUR AU - O’Brien, W. A. AU - Hartigan, P. M. AU - Martin, D. AU - Esinhart, J. AU - Hill, A. AU - Benoit, S. AU - Rubin, M. AU - Simberkoff, M. S. AU - Hamilton, J. D. PY - 1996 DA - 1996// TI - Changes in plasma HIV-1 RNA and CD4+ lymphocyte counts and the risk of progression to AIDS JO - N Engl J Med VL - 334 UR - https://doi.org/10.1056/NEJM199602153340703 DO - 10.1056/NEJM199602153340703 ID - O’Brien1996 ER - TY - STD TI - Flint SJ, Racaniello V, Enquist L, Skalka AM (2009) Principles of virology, Volume 2: pathogenesis and control, ASM press. ID - ref10 ER - TY - JOUR AU - Nielsen, S. S. AU - Ersbøll, A. K. PY - 2006 DA - 2006// TI - Age at occurrence of Mycobacterium avium subspecies paratuberculosis in naturally infected dairy cows JO - J Dairy Sci VL - 89 UR - https://doi.org/10.3168/jds.S0022-0302(06)72505-X DO - 10.3168/jds.S0022-0302(06)72505-X ID - Nielsen2006 ER - TY - JOUR AU - Windsor, P. A. AU - Whittington, R. J. PY - 2010 DA - 2010// TI - Evidence for age susceptibility of cattle to Johne’s disease JO - Br Vet J VL - 184 UR - https://doi.org/10.1016/j.tvjl.2009.01.007 DO - 10.1016/j.tvjl.2009.01.007 ID - Windsor2010 ER - TY - STD TI - Itô K Diffusion Processes, Wiley Online Library, Springer: Berlin. 1974. ID - ref13 ER - TY - JOUR AU - Jameson, A. AU - Schmidt, W. AU - Turkel, E. PY - 1981 DA - 1981// TI - Numerical solutions of the Euler equations by finite volume methods using Runge–Kutta time-stepping schemes JO - AIAA paper VL - 1259 ID - Jameson1981 ER - TY - STD TI - Mitchell RM, Schukken Y, Koets AP, Weber M, Bakker D, Stabel J, Whitlock R, Louzoun Y (2015) Differences in intermittent and continuous fecal shedding patterns between natural and experimental Mycobacterium avium subspecies paratuberculosis infections in cattle. Vet Res 46 (in press). ID - ref15 ER - TY - JOUR AU - Pradhan, A. AU - Kessel, J. AU - Karns, J. AU - Wolfgang, D. AU - Hovingh, E. AU - Nelen, K. AU - Smith, J. AU - Whitlock, R. AU - Fyock, T. AU - Ladely, S. PY - 2009 DA - 2009// TI - Dynamics of endemic infectious diseases of animal and human importance on three dairy herds in the northeastern United States JO - J Dairy Sci VL - 92 UR - https://doi.org/10.3168/jds.2008-1486 DO - 10.3168/jds.2008-1486 ID - Pradhan2009 ER - TY - JOUR AU - Pradhan, A. K. AU - Mitchell, R. M. AU - Kramer, A. J. AU - Zurakowski, M. J. AU - Fyock, T. L. AU - Whitlock, R. H. AU - Smith, J. M. AU - Hovingh, E. AU - Kessel, J. A. S. AU - Karns, J. S. PY - 2011 DA - 2011// TI - Molecular epidemiology of Mycobacterium avium subsp. paratuberculosis in a longitudinal study of three dairy herds JO - J Clin Microbiol VL - 49 UR - https://doi.org/10.1128/JCM.01107-10 DO - 10.1128/JCM.01107-10 ID - Pradhan2011 ER - TY - STD TI - Schukken YH, Whitlock RH, Wolfgang D, Gröhn Y, Beaver A, VanKessel J, Zurakowski MJ, Mitchell RM (2015) Longitudinal data collection of Mycobacterium avium subspecies paratuberculosis infections in dairy herds. Collection and use of observational data. Vet Res 46 (in press). ID - ref18 ER - TY - JOUR AU - Benedictus, A. AU - Mitchell, R. AU - Linde-Widmann, M. AU - Sweeney, R. AU - Fyock, T. AU - Schukken, Y. AU - Whitlock, R. PY - 2008 DA - 2008// TI - Transmission parameters of Mycobacterium avium subspecies paratuberculosis infections in a dairy herd going through a control program JO - Prev Vet Med VL - 83 UR - https://doi.org/10.1016/j.prevetmed.2007.07.008 DO - 10.1016/j.prevetmed.2007.07.008 ID - Benedictus2008 ER - TY - JOUR AU - Koets, A. AU - Santema, W. AU - Mertens, H. AU - Oostenrijk, D. AU - Keestra, M. AU - Overdijk, M. AU - Labouriau, R. AU - Franken, P. AU - Frijters, A. AU - Nielen, M. PY - 2010 DA - 2010// TI - Susceptibility to paratuberculosis infection in cattle is associated with single nucleotide polymorphisms in Toll-like receptor 2 which modulate immune responses against Mycobacterium avium subspecies paratuberculosis JO - Prev Vet Med VL - 93 UR - https://doi.org/10.1016/j.prevetmed.2009.11.008 DO - 10.1016/j.prevetmed.2009.11.008 ID - Koets2010 ER - TY - STD TI - Koets AP, Eda S, Sreevatsan S (2015) The within host dynamics of Mycobacterium avium ssp. paratuberculosis infection in cattle: where time and place matter. Vet Res 46 (in press). ID - ref21 ER - TY - JOUR AU - Mitchell, R. M. AU - Medley, G. F. AU - Collins, M. T. AU - Schukken, Y. H. PY - 2012 DA - 2012// TI - A meta-analysis of the effect of dose and age at exposure on shedding of Mycobacterium avium subspecies paratuberculosis (MAP) in experimentally infected calves and cows JO - Epidemiol Infect VL - 140 UR - https://doi.org/10.1017/S0950268811000689 DO - 10.1017/S0950268811000689 ID - Mitchell2012 ER - TY - JOUR AU - Flórido, M. AU - Cooper, A. M. AU - Appelberg, R. PY - 2002 DA - 2002// TI - Immunological basis of the development of necrotic lesions following Mycobacterium avium infection JO - Immunology VL - 106 UR - https://doi.org/10.1046/j.1365-2567.2002.01459.x DO - 10.1046/j.1365-2567.2002.01459.x ID - Flórido2002 ER - TY - JOUR AU - Tsai, H. T. AU - Liu, T. M. PY - 2005 DA - 2005// TI - Effects of global climate change on disease epidemics and social instability around the world JO - Hum Secur Climate Change VL - 2005 ID - Tsai2005 ER - TY - STD TI - Koenig HG, Cohen HJE, The link between religion and health: Psychoneuroimmunology and the faith factor, Oxford University Press: New York. 2002. ID - ref25 ER - TY - JOUR AU - Bull, J. PY - 1994 DA - 1994// TI - Perspective: virulence JO - Evolution VL - 1994 UR - https://doi.org/10.2307/2410237 DO - 10.2307/2410237 ID - Bull1994 ER - TY - JOUR AU - Frank, S. A. PY - 1996 DA - 1996// TI - Models of parasite virulence JO - Q Rev Biol VL - 71 UR - https://doi.org/10.1086/419267 DO - 10.1086/419267 ID - Frank1996 ER - TY - JOUR AU - Sasaki, A. AU - Iwasa, Y. PY - 1991 DA - 1991// TI - Optimal growth schedule of pathogens within a host: switching between lytic and latent cycles JO - Theor Popul Biol VL - 39 UR - https://doi.org/10.1016/0040-5809(91)90036-F DO - 10.1016/0040-5809(91)90036-F ID - Sasaki1991 ER - TY - JOUR AU - Bremermann, H. J. AU - Pickering, J. PY - 1983 DA - 1983// TI - A game-theoretical model of parasite virulence JO - J Theor Biol VL - 100 UR - https://doi.org/10.1016/0022-5193(83)90438-1 DO - 10.1016/0022-5193(83)90438-1 ID - Bremermann1983 ER - TY - JOUR AU - Ebert, D. AU - Bull, J. J. PY - 2003 DA - 2003// TI - Challenging the trade-off model for the evolution of virulence: is virulence management feasible? JO - Trends Microbiol VL - 11 UR - https://doi.org/10.1016/S0966-842X(02)00003-3 DO - 10.1016/S0966-842X(02)00003-3 ID - Ebert2003 ER - TY - JOUR AU - Hershberg, U. AU - Louzoun, Y. AU - Atlan, H. AU - Solomon, S. PY - 2001 DA - 2001// TI - HIV time hierarchy: winning the war while, loosing all the battles JO - Physica A VL - 289 UR - https://doi.org/10.1016/S0378-4371(00)00466-0 DO - 10.1016/S0378-4371(00)00466-0 ID - Hershberg2001 ER - TY - JOUR AU - Nowak, M. A. AU - May, R. M. AU - Anderson, R. M. PY - 1990 DA - 1990// TI - The evolutionary dynamics of HIV-1 quasispecies and the development of immunodeficiency disease JO - Aids VL - 4 UR - https://doi.org/10.1097/00002030-199011000-00007 DO - 10.1097/00002030-199011000-00007 ID - Nowak1990 ER - TY - JOUR AU - Gammack, D. AU - Ganguli, S. AU - Marino, S. AU - Segovia-Juarez, J. AU - Kirschner, D. E. PY - 2005 DA - 2005// TI - Understanding the immune response in tuberculosis using different mathematical models and biological scales JO - Multiscale Model Sim VL - 3 UR - https://doi.org/10.1137/040603127 DO - 10.1137/040603127 ID - Gammack2005 ER - TY - JOUR AU - McMichael, A. J. AU - Phillips, R. E. PY - 1997 DA - 1997// TI - Escape of human immunodeficiency virus from immune control JO - Annu Rev Immunol VL - 15 UR - https://doi.org/10.1146/annurev.immunol.15.1.271 DO - 10.1146/annurev.immunol.15.1.271 ID - McMichael1997 ER - TY - JOUR AU - Khanna, K. M. AU - Lepisto, A. J. AU - Decman, V. AU - Hendricks, R. L. PY - 2004 DA - 2004// TI - Immune control of herpes simplex virus during latency JO - Curr Opin Immunol VL - 16 UR - https://doi.org/10.1016/j.coi.2004.05.003 DO - 10.1016/j.coi.2004.05.003 ID - Khanna2004 ER - TY - JOUR AU - Decman, V. AU - Freeman, M. L. AU - Kinchington, P. R. AU - Hendricks, R. L. PY - 2005 DA - 2005// TI - Immune control of HSV-1 latency JO - Viral Immunol VL - 18 UR - https://doi.org/10.1089/vim.2005.18.466 DO - 10.1089/vim.2005.18.466 ID - Decman2005 ER - TY - JOUR AU - Garcia‐Lora, A. AU - Algarra, I. AU - Garrido, F. PY - 2003 DA - 2003// TI - MHC class I antigens, immune surveillance, and tumor immune escape JO - J Cell Physiol VL - 195 UR - https://doi.org/10.1002/jcp.10290 DO - 10.1002/jcp.10290 ID - Garcia‐Lora2003 ER - TY - JOUR AU - Kim, R. AU - Emi, M. AU - Tanabe, K. PY - 2007 DA - 2007// TI - Cancer immunoediting from immune surveillance to immune escape JO - Immunology VL - 121 UR - https://doi.org/10.1111/j.1365-2567.2007.02587.x DO - 10.1111/j.1365-2567.2007.02587.x ID - Kim2007 ER - TY - STD TI - Edelstein-Keshet L (1988) Mathematical models in biology, Siam. Random House: New York. ID - ref39 ER - TY - JOUR AU - Behar, H. AU - Agranovich, A. AU - Louzoun, Y. PY - 2013 DA - 2013// TI - Diffusion rate determines balance between extinction and proliferation in birth-death processes JO - Math Biosci Eng VL - 10 UR - https://doi.org/10.3934/mbe.2013.10.523 DO - 10.3934/mbe.2013.10.523 ID - Behar2013 ER - TY - JOUR AU - Arditi, R. AU - Ginzburg, L. R. PY - 1989 DA - 1989// TI - Coupling in predator–prey dynamics: ratio-dependence JO - J Theor Biol VL - 139 UR - https://doi.org/10.1016/S0022-5193(89)80211-5 DO - 10.1016/S0022-5193(89)80211-5 ID - Arditi1989 ER - TY - STD TI - Arnold L (1974) Stochastic differential equations: theory and applications, John Wiley & Sons, Inc: New York. ID - ref42 ER - TY - JOUR AU - Flash, T. AU - Hogan, N. PY - 1985 DA - 1985// TI - The coordination of arm movements: an experimentally confirmed mathematical model JO - J Neurosci VL - 5 ID - Flash1985 ER - TY - JOUR AU - Ly, H. V. AU - Tran, H. T. PY - 2001 DA - 2001// TI - Modeling and control of physical processes using proper orthogonal decomposition JO - Math Comput Model VL - 33 UR - https://doi.org/10.1016/S0895-7177(00)00240-5 DO - 10.1016/S0895-7177(00)00240-5 ID - Ly2001 ER - TY - JOUR AU - Behar, H. AU - Shnerb, N. AU - Louzoun, Y. PY - 2012 DA - 2012// TI - Balance between absorbing and positive fixed points in resource consumption models JO - Phys Rev E Stat Nonlin Soft Matter Phys VL - 86 UR - https://doi.org/10.1103/PhysRevE.86.031146 DO - 10.1103/PhysRevE.86.031146 ID - Behar2012 ER - TY - JOUR AU - Louzoun, Y. AU - Solomon, S. AU - Goldenberg, J. AU - Mazursky, D. PY - 2003 DA - 2003// TI - World-size global markets lead to economic instability JO - Artif Life VL - 9 UR - https://doi.org/10.1162/106454603322694816 DO - 10.1162/106454603322694816 ID - Louzoun2003 ER - TY - JOUR AU - Arrow, K. J. PY - 1969 DA - 1969// TI - The organization of economic activity: issues pertinent to the choice of market versus nonmarket allocation JO - Anal Eval Public Expend VL - 1 ID - Arrow1969 ER - TY - JOUR AU - Benzi, R. AU - Sutera, A. AU - Vulpiani, A. PY - 1981 DA - 1981// TI - The mechanism of stochastic resonance JO - J Phys A Math Gen VL - 14 UR - https://doi.org/10.1088/0305-4470/14/11/006 DO - 10.1088/0305-4470/14/11/006 ID - Benzi1981 ER - TY - JOUR AU - Benzi, R. AU - Parisi, G. AU - Sutera, A. AU - Vulpiani, A. PY - 1982 DA - 1982// TI - Stochastic resonance in climatic change JO - Tellus VL - 34 UR - https://doi.org/10.1111/j.2153-3490.1982.tb01787.x DO - 10.1111/j.2153-3490.1982.tb01787.x ID - Benzi1982 ER - TY - JOUR AU - Bostock, H. AU - Baker, M. AU - Reid, G. PY - 1991 DA - 1991// TI - Changes in excitability of human motor axons underlying post-ischaemic fasciculations: evidence for two stable states JO - J Physiol VL - 441 UR - https://doi.org/10.1113/jphysiol.1991.sp018766 DO - 10.1113/jphysiol.1991.sp018766 ID - Bostock1991 ER -