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PUBLICATIONS

LIST OF PUBLICATIONS - NAVEEN K. VAIDYA (SDSU-DiMoLab)

[Updated: Dec 17, 2024]
Google Scholar Citations: Link

    Refereed Articles:

    Submitted or in revision

  1. P. M. Uhl, C. Silveira, D. Conrad, K. Whiteson, D. Wodarz, F. Rohwer, N. K. Vaidya, Oxygen-dependent spatiotemporal dynamics of aerobic and anaerobic communities in cystic fibrosis: Implication to antibiotic treatment (submitted)
  2. M. I. Rojas, M. Little, S. S Giles, R. Baron, A. Bloomquist, A. Sanchez-Quinto, A. V. Cantu, A. van der Geer, A. G. Cobian-Guemes, G. Burkeen, I. Livingston, J. Aquino, R. John, J. Baer, T. R. T. Dagenais, B. A. Bailey, N. K. Vaidya, F. L Rohwer, Presence of SARS-CoV-2 on surfaces of the urban environment and risk of fomite transmission amidst the COVID-19 pandemic (submitted)

    3. 2024

  3. A. Busalacchi, M. Weissman, F.-B. Wang, N. K. Vaidya, Modeling the Role of Temperature-Dependent Microbiome Composition in Black Band Disease Transmission Among Coral Reefs, Mathematical Biosciences (accepted)
  4. R. Gautam, K. Adhikari, A. Pokharel, K. N. Uprety, N. K. Vaidya, Role of cross-border mobility on the backward bifurcation of malaria transmission model: Implications for malaria control in Nepal, Nonlinear Analysis: Real World Applications (accepted)
  5. A. Pokharel, K. Adhikari, R. Gautam, K. N. Uprety, N. K. Vaidya, Modeling Measles Transmission in Adults and Children: Implications to Vaccination for Eradication, Infectious Disease Modelling, Vol. 9, 1007-1026 (2024)
  6. G. Yeni, E. Akin, N. K. Vaidya, Time Scale Theory on Stability of Explicit and Implicit Discrete Epidemic Models: Applications to Swine Flu Outbreak, Journal of Mathematical Biology, Vol. 88, 6 (2024)

    7. 2023

  7. B. Pantha, J. Mohammed-Awel, N. K. Vaidya, Effects of Vaccination on the Multi-strain Transmission Dynamics of COVID-19: Dougherty County, Georgia, USA as a Case Study, Mathematical Medicine and Biology (accepted)
  8. K. Adhikari, R. Gautam, A. Pokharel, K. N. Uprety, N. K. Vaidya, Data-Driven Models for the Risk of Infection and Hospitalization during a Pandemic: Case Study on COVID-19 in Nepal, Journal of Theoretical Biology, Online, 111622 (2023)
  9. C. Barker, F.-B. Wang, N. K. Vaidya, Modeling Antiretrovial Treatment to Mitigate HIV in the Brain: Impact of the Blood-Brain Barrier, Bulletin of Mathematical Biology, Vol. 85, 105 (2023)
  10. C. S. Fohona, V. Agrahari, N. K. Vaidya, B. C. Youan, Modelling Tenofovir Release Kinetics from Hyaluronidase-Sensitive Nanomedicine: A Deterministic Approach, OpenNano, Vol. 13, 100167 (2023)
  11. P. Uhl, N. K. Vaidya, Modeling the Effects of Drugs of Abuse on Within-host Dynamics of Two HIV Species, Journal of Thoeretical Biology, Vol. 562, 111435 (2023)

    12. 2022

  12. K. Adhikari, R. Gautam, A. Pokharel, M. Dhimal, K. N. Uprety, N. K. Vaidya, Insight into Delta Variant Dominated Second Wave of COVID-19 in Nepal, Epidemics, Vol. 41, 100642 (2022)
  13. B. Pantha, J. Mohammed-Awel, N. K. Vaidya, Effects of Vaccination on the Transmission Dynamics of COVID-19 in Dougherty County of Georgia, USA, Journal of Biological Systems, Vol. 30, 553-583 (2022)
  14. R. Gautam, A. Pokharel, K. Adhikari, K. N. Uprety, N. K. Vaidya, Modeling Malaria Transmission in Nepal: Impact of Imported Cases through Cross-Border Mobility, Journal of Biological Dynamics, Vol. 16, 528-564 (2022)
  15. A. M. Simmons, S. Abd-Rabou, A. A. Farag, B. Pantha, N. K. Vaidya, Population Prediction of Whiteflies (Bemisia Tabaci) in Changing Environments of Egypt, African Journal of Tropical Entomology Research, Vol. 1, 72–82 (2022)
  16. A. Pokharel, K. Adhikari, R. Gautam, K. N. Uprety, N. K. Vaidya, Modeling Transmission Dynamics of Measles in Npeal and its Control with Monitored Vaccination Program, Mathematical Biosciences and Engineering, Vol. 9, 8554-8579 (2022)
  17. C. L. Lehnig, E. Oren, N. K. Vaidya, Effectiveness of Alternative Spring Break Schedules on Reducing COVID-19 Incidence on College Campuses, Scientific Reports, Vol. 12, 2116 (2022)
  18. N. K. Vaidya, F. Wang, Persistence of Mosquito Vectors and Dengue: Impact of Seasonal and Diurnal Temperature Variations, Discrete and Continuous Dynamical Systems - Series B, Vol. 17, pp 393-420 (2022)

    19. 2021

  19. N. K. Vaidya, A. Bloomquist, A. S. Perelson, Modeling Within-host Dynamics of SARS-CoV-2 Infection: A Case Study in Ferrets, Viruses, Vol. 13, 1635 (2021)
  20. B. Pantha, S. Acharya, H. R. Joshi, N. K. Vaidya, Inter-provincial Disparity of COVID-19 Transmission and Control in Nepal, Scientific Reports, Vol. 11, 13363 (2021)
  21. N. K. Vaidya, M. Peter, Modeling Intracellular Delay in Within-host HIV Dynamics under Conditioning of Drugs of Abuse, Bulletin of Mathematical Biology, Vol. 83, 81 (2021)
  22. K. Adhikari, R. Gautam, A. Pokharel, K. N. Uprety, N. K. Vaidya, Transmission Dynamics of COVID-19 in Nepal: Mathematical Model Uncovering Effective Controls, Journal of Theoretical Biology, Vol. 521, 110680 (2021)
  23. S. Ciupe, N. K. Vaidya, J. Forde, Early Events in Hepatitis B Infection: the Role of Inoculum Dose, Proceedings of the Royal Society B, Vol. 288 (1944), 20202715 (2021)
  24. B. Pantha, S. Giri, H. R. Joshi, N. K. Vaidya, Modeling Transmission Dynamics of Rabies in Nepal, Infectious Disease Modeling, Vol. 6, pp. 284-301 (2021)

    25. 2020

  25. C. T. Barker, N. K. Vaidya, Modeling HIV-1 Infection in the Brain, PLoS Computational Biology, Vol. 16(11), e1008305 (2020)
  26. B. Pantha, H. R. Joshi, N. K. Vaidya, Controlling Rabies Epidemics in Nepal with Limited Resources: Optimal Control Theory Approach, Mathematics in Applied Sciences and Engineering, Vol. 1 (4), pp 353-370 (2020)
  27. A. Bloomquist, N. K. Vaidya, Modeling the Risk of HIV Infection for Drug Abusers, Journal of Biological Dynamics, pp. 1-24 (2020)
  28. J. Mutua, F. Wang, N. K. Vaidya, Effects of Periodic Intake of Drugs of Abuse on HIV Dynamics: Mathematical Model and Analysis, Mathematical Biosciences, Vol. 326, 108395 (2020)
  29. L. F. O. Lima, M. Weissman, M. Reed, B. Papudeshi, A. T. Alker, M. M. Morris, R. A. Edwards, S. de Putron, N. K. Vaidya, E. A. Dinsdale, Modeling of the Coral Microbiome: the Influence of Temperature and Microbial Network, mBio, Vol. 11(2), e02691-19 (2020),

    30. 2019

  30. M. Rahman, K. Bekele-Maxwell, L. Cates, H. T. Banks, N. K. Vaidya, Modeling Zika Virus Transmission Dynamics: Parameter Estimates, Disease Characteristics, and Prevention, Scientific Reports, Vol. 9, 10575 (2019)
  31. J. M. Mutua, A. S. Perelson, A. Kumar, N. K. Vaidya, Modeling the Effects of Morphine-Altered Virus Specific Antibody Responses on HIV/SIV Dynamics, Scientific Reports, Vol. 9, 5423 (2019)
  32. A. Nguyen, J. Mahaffy, N. K. Vaidya, Modeling Transmission Dynamics of Lyme Disease: Multiple Vectors, Seasonality, and Vector Mobility, Infectious Disease Modelling, Vol. 4, pp 28-43 (2019)
  33. N. K. Vaidya, X. Li, and F. Wang, Impact Of Spatially Heterogeneous Temperature On The Dynamics of Dengue Epidemics, Discrete and Continuous Dynamical Systems - Series B, Vol. 24, pp. 321-349 (2019) DOI: 10.3934/dcdsb.2018099

    34. 2018

  34. N. K. Vaidya, R. M. Ribeiro, P. Liu, N. Vandergrift, B. F. Haynes, G. D. Tomaras, and A. S. Perelson, Correlation between Anti-gp41 Antibodies and Virus Infectivity Decay during Primary HIV-1 Infection, Frontiers in Microbiology, Vol. 9, pp 1326 (2018)
  35. E. J. Schwartz, N. K. Vaidya, K. Dorman, S. Carpenter, and R. Mealey, Dynamics of Lentiviral Infection In Vivo in the Absence of Adaptive Immune Responses, Virology , Vol. 513, pp. 108-113 (2018)

    36. 2017

  36. N. K. Vaidya and L. Rong, Modeling Pharmacodynamics on HIV Latent Infection: Choice of Drugs is Key to Successful Cure via Early Therapy, SIAM Journal on Applied Mathematics, Vol. 77(5), pp. 1781-1804 (2017)
  37. J. M. Mutua, C. T. Barker, and N. K. Vaidya, Modeling Impacts of Socioeconomic Status and Vaccination Programs on Typhoid Fever Epidemics, Electronic Journal of Differential Equations, Conf. 24, pp. 63-74 (2017)

    38. 2016

  38. E. J. Schwartz, K. R. H. Bigs, C. Bailes, K. Ferolito, and N. K. Vaidya, HIV Dynamics With Immune Responses: Perspectives From Mathematical Modeling, Current Clinical Microbiology Reports, Vol. 3, pp. 216-224 (2016)
  39. N. K. Vaidya, R. M. Ribeiro, A. S. Perelson, and A. Kumar, Modeling the Effects of Morphine on Simian Immunodeficiency Virus Dynamics, PLoS Computational Biology, Vol. 12(9), e1005127 (2016)
  40. S. M. A. Rahman, N. K. Vaidya, and X. Zou, Impact of Early Treatment Programs on HIV Epidemics: an Immunity-based Mathematical Model, Mathematical Biosciences , Vol. 280, pp. 38-49 (2016)
  41. A. Mallela, S. Lenhart, and N. K. Vaidya, HIV-TB Co-infection Treatment: Modeling and Optimal Control Theory Perspectives, Journal of Computational and Applied Mathematics, Vol. 307, pp. 143-164 (2016)
  42. A. Shah, N. K. Vaidya, H. Bhat, and A. Kumar, HIV-1 gp120 induces type-1 programmed cell death through ER stress employing IRE1-alpha, JNK and AP-1 pathway, Scientific Reports, Vol. 6, pp. 18929 (2016)
  43. A. R. Nookala, J. Li, A. Ande, L. Wang, N. K. Vaidya, W. Li, S. Kumar, and A. Kumar, Effect of Methamphetamine on Spectral Binding, Ligand Docking and Metabolism of Anti-HIV Drugs with CYP3A4, PloS ONE, Vol. 11, pp. e0146529 (2016)

    44. 2015

  44. J. M. Mutua, F. Wang, and N. K. Vaidya, Modeling Malaria and Typhoid Fever Co-infection Dynamics, Mathematical Biosciences Vol. 264, pp. 128-144 (2015)
  45. N. K. Vaidya and L. M. Wahl, Avian Influenza Dynamics under Periodic Environmental Conditions, SIAM Journal on Applied Mathematics, Vol. 75, pp. 443-467 (2015)
  46. N. K. Vaidya, M. Morgan, T. Jones, L. Miller, S. Lapin, and E. J. Schwartz, Modelling the Epidemic Spread of an H1N1 Influenza Outbreak in a Rural University Town, Epidemiology and Infection , Vol. 143, pp. 1610-1620 (2015)
  47. L. Cao, M. P. Walker, N. K. Vaidya, M. Fu, S. Kumar, A. Kumar, Cocaine-Mediated Autophagy in Astrocytes Involves Sigma 1 Receptor, PI3K, mTOR, Atg5/7, Beclin-1 and Induces Type II Programed Cell Death, Molecular Neurobiology, pp. 1-14 (2015)

    48. 2014

  48. S. M. A. Rahman, N. K. Vaidya, and X. Zou, Impact of Tenofovir gel as a PrEP on HIV infection: a mathematical model, Journal of Theoretical Biology, Vol. 347, pp. 151-159 (2014)

    49. 2012

  49. S. Akbari, N. K. Vaidya, L. M. Wahl, The time distribution of sulfadoxine pyrimethamine protection from malaria, Bulletin of Mathematical Biology, Vol. 74, pp. 2733-2751 (2012)
  50. (Equal contribution as joint first author) N. M. Archin, N. K. Vaidya, J. D. Kuruc, A. Lees, A. Weigand, M. Kearney, M. S. Cohen, J. M. Coffin, R. J. Bosch, C. L. Gay, J. J. Eron, D. M. Margolis and A. S. Perelson, Immediate Antiviral Therapy Appears to Restrict Resting CD4+ Cell HIV-1 Infection without Accelerating the Decay of Latent Infection, Proceedings of the National Academy of Sciences, Vol. 109, 9523-9528 (2012)
  51. N. K. Vaidya, F. Wang and X. Zou, Avian Influenza Dynamics in Wild Birds with Bird Mobility and Spatial Heterogeneous Environment, Discrete and Continuous Dynamical Systems Series B, Vol. 17, pp. 2829-2848 (2012)
  52. N. K. Vaidya, F. Wang, X. Zou and L. Wahl, Transmission Dynamics of the Recently-identified BYD Virus Causing Duck Egg-drop Syndrome, PLoS ONE, Vol. 7, e35161, pp. 1-8 (2012)

    53. 2011

  53. N. K. Vaidya and J. Wu, HIV Epidemic in Far-Western Nepal: Effect of Seasonal Labor Migration to India, BMC Public Health, Vol. 11, 310 (2011)
  54. B.P. Konrad, N. K. Vaidya and R.J. Smith?, Modelling Mutation to a Cytotoxic T-lymphocyte HIV Vaccine, Mathematical Population Studies, Vol. 18, pp. 122-149 (2011)

    55. 2010

  55. N. K. Vaidya, L. Rong, V. Marconi, D. R. Kuritzkes, S. G. Deeks and A. S. Perelson, Treatment-mediated Alterations in HIV Fitness Preserve CD4+ T Cell Counts but Have Minimal Effects on Viral Load, PLoS Computational Biology, Vol. 6(11), e1001012, pp. 1-14 (2010)
  56. N. K. Vaidya, R.M. Ribeirio, C.J. Miller and A.S. Perelson, Viral Dynamics during Primary SIV Infection: Effect of Time-dependent Virus Infectiousness, Journal of Virology, Vol. 84(9), pp. 4302-4310 (2010)
  57. N. K. Vaidya, H. Huang and S. Takagi, Coarse-Grained Molecular Dynamics Simulation of Interaction between Hemagglutinin Fusion Peptides and Lipid Bilayer Membranes, Advances in Applied Mathematics and Mechanics, Vol. 2(4), pp. 430-450 (2010)
  58. N. K. Vaidya and H. Huang, Influenza Viral Membrane Deformation due to Refolding of HA-protein: Two-dimensional Model and Analysis. Advances in Applied Mathematics and Mechanics, Vol. 2(2), pp. 160-182 (2010)

    59. 2008

  59. N. K. Vaidya and J. Wu, Modeling Spruce Budworm Population Revisited: Impact of Physiological Structure on Outbreak Control. Bulletin of Mathematical Biology, Vol. 70, pp. 769-784 (2008)
  60. (Equal contribution as joint first author, see 'Acknowledgements' section) E. F. Long, N. K. Vaidya and M. L. Brandeau, Controlling Co-epidemics: Analysis of HIV and Tuberculosis Infection Dynamics. Operations Research, Vol. 56, pp. 1366-1381 (2008)

    61. 2007

  61. N. K. Vaidya, H. Huang and S. Takagi, Correct Equilibrium Shape Equation of Axisymmetric Vesicles. In Integral Methods in Science and Engineering: Techniques and Applications, C. Constanda and S. Potapenko (eds.), Birkhauser, Boston, pp. 267-276 (2007)
  62. N. K. Vaidya, H. Huang and S. Takagi, Modeling HA-protein Mediated Interaction between an Influenza Virus and a Healthy Cell: Pre-fusion Membrane Deformation. Mathematical Medicine and Biology, Vol. 24, pp. 251-270 (2007)

    63. 2006

  63. N. K. Vaidya, H. Huang and D. Liang. Grown-in Defects of InSb Crystals: Models and Computation. Communications in Computational Physics, Vol. 1(3), pp. 513-529 (2006)

    64. Non-refereed articles:

  64. N. K. Vaidya, D. R. Adhikari, Preface: Thematic Issue in Mathematical Biology and Applied Evolutionary Equations. Mathematics in Applied Sciences and Engineering, Vol. 1(4), pp. 274 (2020)
  65. J. Arino, N. Baddour, C. Breward, A. Gummel, X. Jiang, C. Podder, B. Pourziaei, O. Sharomi, N. K. Vaidya, J.F. Williams and J. Wu, Global Migration and Severe Acute Respiratory Syndrome (SARS). In Proceedings of the First Fields-MITACS Industrial Problems Workshop, The Fields Institute for Research in Mathematical Sciences, Toronto, Canada (August 20-24, 2006), pp. 51-58.
  66. C. S. Bohun, R. Clysdale, D. David-Rus, M. Emmett, D. Henderson, M. Hughes, C. Hogan, E. Lushi, B. Monthubert, P. Smith, N. K. Vaidya and R. Westbrook, Mathematical Model of the Mechanics and Dynamics of the Tails in Dinosaur. In Proceedings of the Ninth PIMS Industrial Problem Solving Workshop, University of Calgary (May 15-19, 2005), pp. 3-16.
  67. C. S. Bohun, P. Jamali, M. Khorvash, M. Mohajer, C. Nouri, J. Odegaard, P. Smith and N. K. Vaidya, Modelling a Stirling Engine. In Proceedings of the Eighth PIMS Graduate Industrial Math Modelling Camp, University of Lethbridge (May 7-11, 2005), pp. 1-9.

    68. Thesis:

  68. PhD Dissertation: Membrane Fusion between an Influenza Virus and a Healthy Cell: Mathematical Models. Faculty of Graduate Studies, York University (2008)
    Supervisor: Professor Huaxiong Huang
  69. MSc Thesis: Modeling Grown-In Defects in Indium Antimonide Crystals. Faculty of Graduate Studies, York University (2004).
    Supervisor: Professor Huaxiong Huang

    70. Report Presented: