Tyler Cassidy

Tyler Cassidy

Mathematical biologist

Publications

Preprints

Publications

Some of these papers are unfortunately behind paywalls. Please contact me and I will be happy to send you the published PDF.

  1. Villa, C., Maini, P.K., Browning, A.P., Jenner, A.L., Hamis, S., Cassidy, T., Reducing phenotype-structured PDE models of cancer evolution to systems of ODEs: a generalised moment dynamics approach, to appear, Journal of Mathematical Biology; arXiv: 2406.01505, link

  2. Browning, A.P., Crossley, R.M., Villa, C., Maini, P.K., Jenner, A.L., Cassidy, T., Hamis, S., Identifiability of heterogeneous phenotype adaptation from low-cell-count experiments and a stochastic model, to appear, PLoS Computational Biology; biorXiv: 2024.08.19.608540, link

  3. Cassidy, T., Using multi-delay discrete delay differential equations to accurately simulate models with distributed delays, to appear, Studies in Applied Mathematics, link

  4. Iyaniwura$^{+}$, A., Cassidy$^{+}$, T., Ribeiro, R.M., Perelson, A.S., A multiscale model of the action of a capsid assembly modulator for the treatment of chronic hepatitis B, PLoS Computational Biology, 21(4): e1012322. link

  5. Braniff, N., Joshi, T., Cassidy, T., Trogdon, M., Kumar, R., Poels, K., Allen, R., Musante, C.J., and Shtylla, B., An integrated quantitative systems pharmacology virtual population approach for calibration with oncology efficacy endpoints, to appear, CPT: Pharmacometrics & Systems Pharmacology

  6. Cassidy, T., Stephenson, K.E., Barouch, D.H., Perelson, A.S., Modeling resistance to the broadly neutralizing antibody PGT121 in people living with HIV-1, PLoS Computational Biology, 20, 3 (2024). link

  7. Cassidy, T., A continuation technique for maximum likelihood estimators in biological models, Bulletin of Mathematical Biology, 85, 90 (2023). link

  8. Cassidy, T., Gillich, P.*, Humphries, A.R., and van Dorp, C.H., Numerical methods and hypoexponential approximations for Gamma distributed delay differential equations, 87, 6, 1043–1089 (2022), The IMA Journal of Applied Mathematics, link Virtual talk on this work applied to cancer modelling

  9. Sanche, S., Cassidy, T., Chu, P., Perelson, A.S., Ribeiro, R.M., and Ke, R., A simple model of COVID-19 explains disease severity and the effect of treatments, Scientific Reports, 12, 14210 (2022), DOI: 10.1038/s41598-022-18244-2. link

  10. Stephenson, K.E., Julg, B., Tan, C.S., Zash, R., Walsh, S.R., Rolle, C-P., Monczor, A.N., Lupo, S., Gelderblom, H.C., Ansel, J.L., Kanhilal, D.G., Maxfield, L.F., Nkolola, J., Borducchi, E.N., Abbink, P., Liu, J., Peter, L., Chandrashekar, A., Nityanandam, R., Lin, Z., Setaro, A., Sapiente, J., Chen, Z., Sunner, L., Cassidy, T., Bennett, C., Sato, A., Mayer, B., Perelson, A.S., deCamp, A., Priddy, F.H., Wagh, K., Giorgi, E.E., Yates, N.L., Arduino, R.C., DeJesus, E., Tomaras, G.D., Seaman, M.S., Korber, B., and Barouch, D.H., Safety, pharmacokinetics, and antiviral activity of PGT121, a broadly neutralizing monoclonal antibody against HIV-1: a randomized, placebocontrolled, phase 1 clinical trial, Nature Medicine, 27, 1718–1724 (2021), DOI: 10.1038/s41591-021-01509-0. link

  11. Cassidy, T., Nichol, D., Robertson-Tessi, M., Craig, M., and Anderson, A.R.A., The role of memory in non-genetic inheritance and its impact on cancer treatment resistance, PLOS Computational Biology, 17(8), 2021, e1009348, DOI: 10.1371/journal.pcbi.1009348. link

  12. Ismail, S.D., Riou, C., Joseph, S.B., Archin, N.M., Margolis, D.M., Perelson, A.S., Cassidy, T., Abrahams, MR., Moeser, M., Council, O.D., McKinnon, L.R., Osman, F., Karim, Q.A., Abdool Karim, S.S., Swanstrom, R., Williamson, C., Garrett, N.J., Burgers, W.A., Immunological correlates of the HIV-1 replication-competent reservoir size, Clinical Infectious Diseases, 73, 8 (2021), 1528–1531. link

  13. Cassidy, T., Distributed Delay Differential Equation Representations of Cyclic Differential Equations, SIAM Journal on Applied Mathematics, 81(4), 1742–1766, DOI: doi.org/10.1137/20M1351606. link

  14. Jenner, A.L., Cassidy, T., Belaid*, K., Bourgeois-Daigneault, M.C., and Craig, M., In silico trials predict that combination strategies for enhancing vesicular stomatisis oncolytic virus are determined by tumour aggressivity, Journal for ImmunoTherapy of Cancer (2021), 9:e001387. doi: 10.1136/jitc-2020-001387. link

  15. Cassidy, T., Humphries, A.R., Craig, M., and Mackey, M.C., Characterizing chemotherapy-induced neutropenia and monocytopenia through mathematical modelling, Bulletin of Mathematical Biology, 82, 104, (2020), DOI: 10.1007/s11538-020-00777-0. link

  16. Cassidy, T. and Craig. M, Determinants of combination GM-CSF immunotherapy and oncolytic virotherapy success identified through in silico treatment personalization, PLOS Computational Biology (2019). link

  17. Cassidy, T. and Humphries, A.R., A Mathematical Model Of Viral Oncology As An Immuno-Oncology Instigator, Mathematical Medicine and Biology: A Journal of the IMA, 37(1):117-151, (2020), DOI:10.1093/imammb/dqz008. link

  18. Cassidy, T., Craig, M. and Humphries, A.R., Equivalences Between Age Structured Models and State Dependent Distributed Delay Differential Equations, Mathematical Biosciences and Engineering, (2019), 16(5): 5419-5450. DOI: 10.3934/mbe.2019270. link

  19. De Souza, D.C, Craig, M., Cassidy, T., Li, J., Nekka, F., Bélair, J. and Humphries, A.R., Transit and lifespan in neutrophil production: implications for drug intervention, Journal of Pharmacokinetics and Pharmacodynamics, (2018) 45: 59. DOI: 10.1007/s10928-017-9560-y. link

  20. Cassidy, T., Gaudreau, P. and Safouhi, H. On the Computation of Eigenvalues of the Anharmonic Coulombic Potential. Journal of Mathematical Chemistry, (2018) 56: 477. DOI:10.1007/s10910-017-0801-5 . link

*: Student under my supervision

$^{+}$: Equal contribution