[Updated: October 29, 2023]

Google Scholar Citations: Link

- 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 (submitted) - 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) - 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) - 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) - 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*(accepted) - 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) - 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) - 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) - P. Uhl,
**N. K. Vaidya**, Modeling the Effects of Drugs of Abuse on Within-host Dynamics of Two HIV Species,*Joournal of Thoeretical Biology*, Vol. 562, 111435 (2023) - 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) - 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) - 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) - 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) - 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) - 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) **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)**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)- 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) **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)- 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) - 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) - 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) - C. T. Barker,
**N. K. Vaidya**, Modeling HIV-1 Infection in the Brain,*PLoS Computational Biology*, Vol. 16(11), e1008305 (2020) - 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) - A. Bloomquist,
**N. K. Vaidya**, Modeling the Risk of HIV Infection for Drug Abusers,*Journal of Biological Dynamics*, pp. 1-24 (2020) - 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) - 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), - 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) - 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) - 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) **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**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)- 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) **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)- Featured in the SIAM NEWS as a Research Nugget Article:
**Mathematically Modeling HIV Drug Pharmacodynamics**, Link

- Featured in the SIAM NEWS as a Research Nugget Article:
- 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) - 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) **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)- Selected to be featured in
*Biomedical Advances*

- Selected to be featured in
- 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) - 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) - 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) - 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) - 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) **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)**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)- 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) - 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) - 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) **(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)- N. K. Vaidya (Theory/modeling) and N. M. Archin (Experiment/Clinical) contributed equally to this work
- Selected as a featured article in the front section of PNAS:
**Flushing out dormant HIV**, Link - Featured in HIVandHepatitis.com:
**Immediate Antiretroviral Therapy Reduces HIV Infection of Resting CD4 T-cells**, Link **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)**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)**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)- 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) **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)**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)**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)**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)**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)- Nominated for the MITACS best student paper award 2008

**(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)**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)**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)- The most downloaded paper of MMB in December 2007, the second most in November 2007, and the third most in January 2008
**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)**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)- Preface: Click

- 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. - 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. - 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. - 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- Received Susan Mann Dissertation Award
- Nominated for the Faculty of Graduate Studies Award

- MSc Thesis: Modeling Grown-In Defects in Indium Antimonide Crystals. Faculty of Graduate Studies, York University (2004).

Supervisor: Professor Huaxiong Huang - Grown-in defects modeling of InSb crystals and computation, Report to MITACS/Firebird Semiconductor Ltd. (February 2004).