Evaluating optimal therapy robustness by virtual expansion of a sample population, with a case study in cancer immunotherapy
Open accessAbstract
Significance: A successful cancer therapy induces a strong antitumor response while causing minimal side effects. The heterogeneous nature of cancer observed across different regions of the primary tumor, across metastatic sites, across time, and across patients makes designing such a successful therapy challenging. Both standard of care and finely tailored treatment protocols run the risk of not exhibiting a robust antitumor response in the face of these uncertainties. Here we introduce a platform for exploring this robustness question using treatment response data from a sample population. Our method integrates these experimental data with statistical and mathematical techniques, allowing us to quantify therapeutic robustness. Using this approach, we identified a robust therapeutic protocol that combines oncolytic viruses with an immunotherapeutic vaccine.
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Some statistical models allow for the prediction of optimal therapy parameters by using time-course experimental data and statistical analyses for identifying robust and optimal treatment protocols.
“In addition, some statistical models allow for the prediction of optimal therapy parameters by using time-course experimental data and statistical analyses for identifying robust and optimal treatment protocols (see ref.97 for a proof of concept).”
From How to design preclinical studies in nanomedicine and cell therapy to maximize the prospects of clinical translation (2018) · cites this paper as [97]
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Cites
Bootstrap methods: another look at the jackknife
Efron, B. (1979) · The Annals of Statistics · doi:10.1214/aos/1176344552 · Cited by 17,602 · see citing works
Structural stability and morphogenesis
Thom, R. (1976) · Pattern Recognition · doi:10.1016/0031-3203(76)90030-3 · Cited by 2,299 · see citing works
Drug delivery with carbon nanotubes for in vivo cancer treatment
Liu, Z., Chen, K., Davis, C. R., Sherlock, S. P., Cao, Q., Chen, X. S., & Dai, H. (2008) · PubMed · doi:10.48550/arxiv.0808.2070 · Cited by 2,287 · see citing works
Robustness in simple biochemical networks
Barkai, N., & Leibler, S. (1997) · Nature · doi:10.1038/43199 · Cited by 1,513 · see citing works
Sontag, E. D. (1998) · Texts in applied mathematics · doi:10.1007/978-1-4612-0577-7 · Cited by 1,227 · see citing works
Self-citationIdentification of parametric models : from experimental data
Walter, E. D., & Pronzato, L. (1997) · Cited by 1,204 · see citing works
Asymmetric T Lymphocyte Division in the Initiation of Adaptive Immune Responses
Chang, J. T., Palanivel, V., Kinjyo, I., Schambach, F., Intlekofer, A. M., Banerjee, A., Longworth, S. A., Vinup, K. E., Mrass, P., Oliaro, J., et al. (2007) · Science · doi:10.1126/science.1139393 · Cited by 845 · see citing works
EGFR-TKI resistance due to BIM polymorphism can be circumvented in combination with HDAC inhibition
中川, 学. (2014) · Institutional Repositories DataBase (IRDB) · Cited by 736 · see citing works
Interleukin-12 in anti-tumor immunity and immunotherapy
Colombo, M. P., & Trinchieri, G. (2002) · Cytokine & Growth Factor Reviews · doi:10.1016/s1359-6101(01)00032-6 · Cited by 687 · see citing works
A Validated Mathematical Model of Cell-Mediated Immune Response to Tumor Growth
de Pillis, L. G., Radunskaya, A., & Wiseman, C. L. (2005) · Cancer Research · doi:10.1158/0008-5472.can-05-0564 · Cited by 656 · see citing works
Classical Mathematical Models for Description and Prediction of Experimental Tumor Growth
Benzekry, S., Lamont, C., Beheshti, A., Tracz, A., Ebos, J. M. L., Hlatky, L., & Hahnfeldt, P. (2014) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1003800 · Cited by 586 · see citing works
Translational Implications of Tumor Heterogeneity
Jamal‐Hanjani, M., Quezada, S. A., Larkin, J., & Swanton, C. (2015) · Clinical Cancer Research · doi:10.1158/1078-0432.ccr-14-1429 · Cited by 549 · see citing works
Personalized medicine: revolutionizing drug discovery and patient care
Ginsburg, G. S. (2001) · Trends in biotechnology · doi:10.1016/s0167-7799(01)01814-5 · Cited by 457 · see citing works
A Mathematical Tumor Model with Immune Resistance and Drug Therapy: An Optimal Control Approach
de Pillis, L. G., & Radunskaya, A. (2000) · Computational and Mathematical Methods in Medicine · doi:10.1080/10273660108833067 · Cited by 427 · see citing works
Spatial and Temporal Heterogeneity in High-Grade Serous Ovarian Cancer: A Phylogenetic Analysis
Schwarz, R. F., Ng, C. K. Y., Cooke, S. L., Newman, S., Temple, J., Piskorz, A., Gale, D. G., Sayal, K., Murtaza, M., Baldwin, P., et al. (2015) · PLoS Medicine · doi:10.1371/journal.pmed.1001789 · Cited by 403 · see citing works
Jamei, M., Dickinson, G. L., & Rostami‐Hodjegan, A. (2009) · Drug Metabolism and Pharmacokinetics · doi:10.2133/dmpk.24.53 · Cited by 368 · see citing works
Ling, S., Hu, Z., Yang, Z., Yang, F., Li, Y., Lin, P., Chen, K., Dong, L., Cao, L., Tao, Y., et al. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1519556112 · Cited by 355 · see citing works
Robust optimization of intensity modulated proton therapy
Liu, W., Zhang, X., Li, Y., et al. (2012) · Medical Physics · doi:10.1118/1.3679340 · Cited by 353 · see citing works
Non-Darwinian dynamics in therapy-induced cancer drug resistance
Pisco, A. O., Brock, A., Zhou, J., Moor, A. E., Mojtahedi, M., Jackson, D. A., & Huang, S. (2013) · Nature Communications · doi:10.1038/ncomms3467 · Cited by 289 · see citing works
Batchelor, E., & Goulian, M. (2003) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0234782100 · Cited by 246 · see citing works
Personalized Medicine and Cancer
Verma, M. (2012) · Journal of Personalized Medicine · doi:10.3390/jpm2010001 · Cited by 222 · see citing works
Mapping spatial heterogeneity in the tumor microenvironment: a new era for digital pathology
Heindl, A., Nawaz, S., & Yuan, Y. (2015) · Laboratory Investigation · doi:10.1038/labinvest.2014.155 · Cited by 212 · see citing works
de Boer, R. J., Oprea, M., Antia, R., Murali‐Krishna, K., Ahmed, R., & Perelson, A. S. (2001) · Journal of Virology · doi:10.1128/jvi.75.22.10663-10669.2001 · Cited by 198 · see citing works
Oncolytic Viruses for Cancer Therapy: Overcoming the Obstacles
Wong, H. H., Lemoine, N. R., & Wang, Y. (2010) · Viruses · doi:10.3390/v2010078 · Cited by 182 · see citing works
Allen, R., Rieger, T. R., & Musante, C. J. (2016) · CPT Pharmacometrics & Systems Pharmacology · doi:10.1002/psp4.12063 · Cited by 179 · see citing works
Optimal Bang-Bang Controls for a Two-Compartment Model in Cancer Chemotherapy
Ledzewicz, U., & Schättler, H. (2002) · Journal of Optimization Theory and Applications · doi:10.1023/a:1016027113579 · Cited by 165 · see citing works
Chen, Y., DeWeese, T. L., Dilley, J., et al. (2001) · PubMed · Cited by 163 · see citing works
A robust approach to IMRT optimization
Chan, T. C. Y., Bortfeld, T. R., & Tsitsiklis, J. N. (2006) · Physics in Medicine and Biology · doi:10.1088/0031-9155/51/10/014 · Cited by 142 · see citing works
Jogler, C., Hoffmann, D., Theegarten, D., et al. (2006) · Journal of Virology · doi:10.1128/jvi.80.7.3549-3558.2006 · Cited by 135 · see citing works
Ayers, G. D., McKinley, E. T., Zhao, P., et al. (2010) · Journal of Ultrasound in Medicine · doi:10.7863/jum.2010.29.6.891 · Cited by 133 · see citing works
ODE models for oncolytic virus dynamics
Komarova, N. L., & Wodarz, D. (2010) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2010.01.009 · Cited by 131 · see citing works
Huang, J.-H., Zhang, S.-N., Choi, K., et al. (2009) · Molecular Therapy · doi:10.1038/mt.2009.205 · Cited by 125 · see citing works
OPTIMAL CONTROL FOR A CLASS OF COMPARTMENTAL MODELS IN CANCER CHEMOTHERAPY
Świerniak, A., Ledzewicz, U., & Schättler, H. (2003) · Cited by 120 · see citing works
Engelhart, M., Lebiedz, D., & Säger, S. (2010) · Mathematical Biosciences · doi:10.1016/j.mbs.2010.11.007 · Cited by 107 · see citing works
Optimal control of treatment in a mathematical model of chronic myelogenous leukemia
Nanda, S., Moore, H. A., & Lenhart, S. (2007) · Mathematical Biosciences · doi:10.1016/j.mbs.2007.05.003 · Cited by 106 · see citing works
A survey of optimization models on cancer chemotherapy treatment planning
Shi, J., Alagöz, O., Erenay, F. S., & Su, Q. (2011) · Annals of Operations Research · doi:10.1007/s10479-011-0869-4 · Cited by 100 · see citing works
Robust Management of Motion Uncertainty in Intensity-Modulated Radiation Therapy
Bortfeld, T. R., Chan, T. C. Y., Trofimov, A. V., et al. (2008) · Operations Research · doi:10.1287/opre.1070.0484 · Cited by 97 · see citing works
Menzies, A. M., Haydu, L. E., Carlino, M. S., Azer, M., Carr, P. J. A., Kefford, R. F., & Long, G. V. (2014) · PLoS ONE · doi:10.1371/journal.pone.0085004 · Cited by 89 · see citing works
Genetic oscillation deduced from Hopf bifurcation in a genetic regulatory network with delays
Xiao, M., & Cao, J. (2008) · Mathematical Biosciences · doi:10.1016/j.mbs.2008.05.004 · Cited by 86 · see citing works
Gaussian process regression bootstrapping: exploring the effects of uncertainty in time course data
Kirk, P., & Stumpf, M. P. H. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp139 · Cited by 83 · see citing works
Pan, J., & Fang, K. (2002) · Springer series in statistics · doi:10.1007/978-0-387-21812-0_3 · Cited by 83 · see citing works
Trauma in silico: Individual-specific mathematical models and virtual clinical populations
Brown, D., Namas, R. A., Almahmoud, K., Zaaqoq, A. M., Sarkar, J., Barclay, D. A., Yin, J., Ghuma, A., Abboud, A., Constantine, G. M., et al. (2015) · Science Translational Medicine · doi:10.1126/scitranslmed.aaa3636 · Cited by 80 · see citing works
Mallavarapu, A., Thomson, M., Ullian, B., & Gunawardena, J. (2008) · Journal of The Royal Society Interface · doi:10.1098/rsif.2008.0205 · Cited by 77 · see citing works
Optimal control for a stochastic model of cancer chemotherapy.
Coldman, A., & Murray, J. M. (2000) · Mathematical Biosciences · doi:10.1016/s0025-5564(00)00045-6 · Cited by 76 · see citing works
Wang, Y., Bhattaram, A., Jadhav, P. R., Lesko, L. J., Madabushi, R., Powell, J. R., Qiu, W., Sun, H., Yim, D., Zheng, J. J., et al. (2008) · The Journal of Clinical Pharmacology · doi:10.1177/0091270007311111 · Cited by 73 · see citing works
Schmidt, B. J., Casey, F., Paterson, T. S., & Chan, J. R. (2013) · BMC Bioinformatics · doi:10.1186/1471-2105-14-221 · Cited by 73 · see citing works
Asymmetric Cell Division in T Lymphocyte Fate Diversification
Arsenio, J., Metz, P. J., & Chang, J. T. (2015) · Trends in Immunology · doi:10.1016/j.it.2015.09.004 · Cited by 71 · see citing works
Optimizing Chemotherapy Scheduling Using Local Search Heuristics
Agur, Z., Hassin, R., & Levy, S. (2006) · Operations Research · doi:10.1287/opre.1060.0320 · Cited by 64 · see citing works
Models in Systems Biology: The Parameter Problem and the Meanings of Robustness
Gunawardena, J. (2010) · Wiley eBooks · doi:10.1002/9780470556757.ch2 · Cited by 63 · see citing works
The memory of a killer T cell: models of CD8+ T cell differentiation
Gerritsen, B., & Pandit, A. (2015) · Immunology and Cell Biology · doi:10.1038/icb.2015.118 · Cited by 56 · see citing works
Quantitative impact of immunomodulation versus oncolysis with cytokine-expressing virus therapeutics
Kim, P., Crivelli, J. J., Choi, I., et al. (2015) · Mathematical Biosciences & Engineering · doi:10.3934/mbe.2015.12.841 · Cited by 54 · see citing works
Novel model-based dosing guidelines for gentamicin and tobramycin in preterm and term neonates
Välitalo, P. A. J., van den Anker, J. N., Allegaert, K., et al. (2015) · Journal of Antimicrobial Chemotherapy · doi:10.1093/jac/dkv052 · Cited by 52 · see citing works
Klinke, D. J. (2007) · Annals of Biomedical Engineering · doi:10.1007/s10439-007-9410-y · Cited by 51 · see citing works
Generating Virtual Patients by Multivariate and Discrete Re-Sampling Techniques
Teutonico, D., Musuamba, F. T., Maas, H. J., et al. (2015) · Pharmaceutical Research · doi:10.1007/s11095-015-1699-x · Cited by 49 · see citing works
Adaptive and robust radiation therapy optimization for lung cancer
Chan, T. C. Y., & Mišić, V. V. (2013) · European Journal of Operational Research · doi:10.1016/j.ejor.2013.06.003 · Cited by 46 · see citing works
Personalized Medicine in Oncology: Where Have we Come From and Where are we Going?
André, F., Ciccolini, J., Spano, J., Penault-Llorca, F. M., Mounier, N., Freyer, G., Blay, J., & Milano, G. A. (2013) · Pharmacogenomics · doi:10.2217/pgs.13.79 · Cited by 45 · see citing works
Metz, P. J., Arsenio, J., Kakaradov, B., Kim, S. H., Remedios, K. A., Oakley, K., Akimoto, K., Ohno, S., Yeo, G. W.-M., & Chang, J. T. (2015) · The Journal of Immunology · doi:10.4049/jimmunol.1401652 · Cited by 42 · see citing works
Li, H.-L., Li, S., Shao, J.-Y., Lin, X.-B., Cao, Y., Jiang, W.-Q., Liu, R.-Y., Zhao, P., Zhu, X.-F., Zeng, M.-S., et al. (2007) · Gene Therapy · doi:10.1038/sj.gt.3303038 · Cited by 38 · see citing works
Wares, J. R., Crivelli, J. J., Yun, C., et al. (2015) · Mathematical Biosciences & Engineering · doi:10.3934/mbe.2015.12.1237 · Cited by 38 · see citing works
Barter, Z. E., Perrett, H. F., Yeo, K. R., Allorge, D., Lennard, M. S., & Rostami‐Hodjegan, A. (2010) · Biopharmaceutics & Drug Disposition · doi:10.1002/bdd.732 · Cited by 35 · see citing works
Kansal, A. R., & Trimmer, J. (2005) · IEE Proceedings - Systems Biology · doi:10.1049/ip-syb:20050043 · Cited by 32 · see citing works
Personalized medicine: Has it started yet? A reconstruction of the early history
Emmert‐Streib, F. (2013) · Frontiers in Genetics · doi:10.3389/fgene.2012.00313 · Cited by 32 · see citing works
Tumor heterogeneity and personalized cancer medicine: are we being outnumbered?
Cirkel, G., Hooijdonk, C. G. G.-V., Koudijs, M., Willems, S., & Voest, E. (2014) · Future Oncology · doi:10.2217/fon.13.214 · Cited by 31 · see citing works
Wang, Z., Bordas, V., & Deisboeck, T. S. (2011) · Frontiers in Physiology · doi:10.3389/fphys.2011.00035 · Cited by 31 · see citing works
Vainas, O., Ariad, S., Amir, O., et al. (2012) · British Journal of Cancer · doi:10.1038/bjc.2012.316 · Cited by 31 · see citing works
Optimal control for resistance and suboptimal response in CML
Aïnseba, B., & Benosman, C. (2010) · Mathematical Biosciences · doi:10.1016/j.mbs.2010.06.005 · Cited by 30 · see citing works
Mathematical Model of Naive T Cell Division and Survival IL-7 Thresholds
Reynolds, J., Coles, M. C., Lythe, G., & Molina-Parı́s, C. (2013) · Frontiers in Immunology · doi:10.3389/fimmu.2013.00434 · Cited by 24 · see citing works
The optimal scheduling of two drugs with simple resistance for a problem in cancer chemotherapy
Murray, J. (1997) · Mathematical Medicine and Biology A Journal of the IMA · doi:10.1093/imammb/14.4.283 · Cited by 23 · see citing works
Optimised Robust Treatment Plans for Prostate Cancer Focal Brachytherapy
Betts, J. M., Mears, C., Reynolds, H. M., et al. (2015) · Procedia Computer Science · doi:10.1016/j.procs.2015.05.225 · Cited by 21 · see citing works
Optimal radiotherapy dose schedules under parametric uncertainty
Badri, H., Watanabe, Y., & Leder, K. (2015) · Physics in Medicine and Biology · doi:10.1088/0031-9155/61/1/338 · Cited by 20 · see citing works
Optimization of vascular-targeting drugs in a computational model of tumor growth
Gevertz, J. L. (2012) · Physical Review E · doi:10.1103/physreve.85.041914 · Cited by 10 · see citing works
Self-citationBootstrapping Parameter Estimation in Dynamic Systems
Lodhi, H. M., & Gilbert, D. (2011) · Lecture notes in computer science · doi:10.1007/978-3-642-24477-3_17 · Cited by 6 · see citing works
Analyzing the quality robustness of chemotherapy plans with respect to model uncertainties
Hoffmann, A., Scherrer, A., & Küfer, K. (2014) · Mathematical Biosciences · doi:10.1016/j.mbs.2014.11.003 · Cited by 6 · see citing works
Haykin, S. (2003) · doi:10.1002/0471219282.eot174 · Cited by 4 · see citing works
Flagged first, then by citations
Research works printed but not linked: 3
- [14]Varma A, Morbidelli M, Wu H. Parameter Sensitivity in Chemical Systems. Cambridge Univ Press; New York: 2005. [Google Scholar]
- [37]Schättler H, Ledzewicz U. Optimal Control for Mathematical Models of Cancer: An Application of Geometric Methods. Springer; New York: 2010. [Google Scholar]
- [58]Feldman J, Goldwasser R, Mark S, Schwartz J, Orion I. A mathematical model for tumor volume evaluation using two-dimensions. J Appl Quant Methods. 2009;4:455–462. [Google Scholar]
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Ioannidis, J. P. A., Kim, B. Y. S., & Trounson, A. (2018) · Nature Biomedical Engineering · doi:10.1038/s41551-018-0314-y · Cited by 175 · see citing works
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Craig, M., Gevertz, J. L., Kareva, I., & Wilkie, K. P. (2023) · Frontiers in Systems Biology · doi:10.3389/fsysb.2023.1174647 · Cited by 52 · see citing works
Self-citationVirtual Patient Generation using Physiological Models through a Compressed Latent Parameterization
Tivay, A., Kramer, G. C., & Hahn, J.-O. (2020) · 2020 American Control Conference (ACC) · doi:10.23919/acc45564.2020.9147298 · Cited by 12 · see citing works
- Authors
- Barish, S., Ochs, M. F., Sontag, E. D., & Gevertz, J. L.
- Affiliations
- The College of New Jersey (US)
- Rutgers, The State University of New Jersey (US)
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2017-07-17
- Volume
- 114
- Issue
- 31
- Pages
- E6277-E6286
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- PMC
- PMC5547617
- OpenAlex
- W2734520279
- Cited by
- 48
- References
- 74
- Citations by year
- 2026: 3 · 2025: 5 · 2024: 3 · 2023: 4 · 2022: 5 · 2021: 7 · 2020: 8 · 2019: 4 · 2018: 8 · 2017: 1
- FWCI
- 4.30
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Proceedings of the National Academy of Sciences (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- HHS | National Institutes of Health (R01 LM011000, 1R01GM100473)
- DOD | USAF | AFMC | Air Force Office of Scientific Research (FA9550-14-1-0060)
- DOD | United States Navy | Office of Naval Research (N00014-13-1-0074)
- Topics
- Physical Sciences › Mathematics › Modeling and Simulation › Mathematical Biology Tumor Growth
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Virus-based gene therapy research
- Life Sciences › Immunology and Microbiology › Immunology › Immunotherapy and Immune Responses
- Keywords
- cancer immunotherapy, oncolytic viruses, cancer vaccines, treatment response heterogeneity, antitumor immunity, tumor heterogeneity
- MeSH terms
- Algorithms, Animals, Cell Differentiation, Computer Simulation, Dendritic Cells, Disease Models, Animal, Immunotherapy, Melanoma, Models, Theoretical, T-Lymphocytes, Cytotoxic, Cancer Vaccines, Oncolytic Virotherapy, Oncolytic Viruses, Mice
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