Preprints
8
Collagen remodeling promotes a GPCR-mediated mechanosensory immune checkpoint in ADGRG1+ CD8+ T cells and serves as a spatial biomarker of response to immunotherapy
S. Srivastava,
J. Powers,
J. Mehta,
S. Marzban,
R. Nozaki,
L. Karanam,
J. Torrez,
H. Bharambe,
F. Faraji,
R. Chaudhary,
P. Bordignon,
J. Giliberti,
R. Slebos,
J. Johnson,
C. Gantenbee,
X. Song,
M. Cassano,
J. Guevara-Patino,
D. Nguyen,
M. Yamauchi,
J. West,
C. Chung,
J. Gutkind,
A. Amelio,
2025
7
Evolutionary antifragile therapy
J. West,
B. Desai,
M. Strobl,
J. Gallaher,
M. Robertson-Tessi,
A. Marusyk,
A. Anderson,
2025
6
Clonal Hematopoiesis Dynamics and Evolutionary Fitness During Cancer Treatment Impact Clinical Outcomes
M. Arabzadeh,
Y. Tang,
C. Colin-Leitzinger,
S. Marzban,
D. Walgenbach,
V. Mahaganapathy,
E. Harper,
M. Teng,
J. Kresovich,
H. Parsons,
J. Garber,
J. West,
S. Ganesan,
H. Khiabanian,
N. Gillis,
2025
5
Applied Antifragility in Natural Systems: Evolutionary Antifragility
C. Axenie,
R. Bauer,
O. Lopez Corona,
E. Ramirez-Carrillo,
A. Barnett,
J. West,
2025
4
Feasibility of an Evolutionary Tumor Board for Generating Novel Personalized Therapeutic Strategies
M. Robertson-Tessi,
J. Brown,
M. Poole,
M. Johnson,
A. Marusyk,
J. Gallaher,
K. Luddy,
C. Whelan,
J. West,
M. Strobl,
V. Turati,
H. Enderling,
M. Schell,
A. Tan,
T. Boyle,
R. Makanji,
J. Farinhas,
H. Soliman,
D. Lemanne,
R. Gatenby,
D. Reed,
A. Anderson,
C. Chung,
2023
3
Local contact inhibition leads to universal principles of cell population growth
G. Kimmel,
J. West,
M. Damaghi,
A. Anderson,
P. Altrock,
2022
2
Antifragile Therapy
J. West,
B. Desai,
M. Strobl,
L. Pierik,
R. Vander Velde,
C. Armagost,
R. Miles,
M. Robertson-Tessi,
A. Marusyk,
A. Anderson,
2020
1
Macrophage-mediated immunoediting drives ductal carcinoma evolution: Space is the game changer
C. Gatenbee,
J. West,
M. Robertson-Tessi,
A. Baker,
N. Guljar,
T. Graham,
A. Anderson,
2018
Peer-reviewed publications
35
Cell State Transitions Drive the Evolution of Disease Progression in B-Lymphoblastic Leukemia
Cancer Research Communications
C. Gravenmier,
S. Marzban,
Y. Tang,
N. Gillis,
B. Shah,
L. Moscinski,
L. Zhang,
J. West,
2026
34
Mathematical Oncology: How Modeling Is Transforming Clinical Decision-Making
Cancer Research
K. Scibilia,
K. Gallagher,
M. Masud,
M. Robertson-Tessi,
C. Gatenbee,
J. West,
P. Llamas,
S. Prabhakaran,
J. Gallaher,
A. Anderson,
2025
33
Evolutionary Double-Bind Treatment Using Radiation Therapy and Natural Killer Cell-Based Immunotherapy in Prostate Cancer
International Journal of Radiation Oncology, Biology, Physics
K. Luddy,
J. West,
M. Robertson-Tessi,
B. Desai,
A. Ojeda,
H. Newman,
V. Estrella,
T. Bursell,
S. Barrett,
J. O'Sullivan,
L. Marignol,
R. Gatenby,
J. Brown,
A. Anderson,
C. O'Farrelly,
2025
32
Spatial interactions modulate tumor growth and immune infiltration
npj Systems Biology & Applications
S. Marzban,
S. Srivastava,
S. Kartika,
R. Bravo,
R. Safriel,
A. Zarski,
A. Anderson,
C. Chung,
A. Amelio,
J. West,
2024
31
Antifragility in complex dynamical systems
npjComplexity
C. Axenie,
O. López-Corona,
M. Makridis,
M. Akbarzadeh,
M. Saveriano,
A. Stancu,
J. West,
2024
30
Defining and Addressing Research Priorities in Cancer Cachexia through Transdisciplinary Collaboration
Cancers
M. Park,
C. Whelan,
S. Ahmed,
T. Boeringer,
J. Brown,
S. Crowder,
C. Gregg,
H. Jim,
A. Judge,
T. Mason,
N. Parker,
S. Pillai,
S. Rajasekhara,
G. Rasool,
S. Tinsley,
M. Schabath,
P. Stewart,
J. West,
P. McDonald,
J. Permuth,
2024
29
To modulate or to skip: De-escalating PARP inhibitor maintenance therapy in ovarian cancer using adaptive therapy
Cell Systems
M. Strobl,
A. Martin,
J. West,
J. Gallaher,
M. Robertson-Tessi,
R. Gatenby,
R. Wenham,
P. Maini,
M. Damaghi,
A. Anderson,
2024
28
Second-order effects of chemotherapy pharmacodynamics and pharmacokinetics on tumor regression and cachexia
Bulletin of Mathematical Biology
L. Pierik,
P. McDonald,
A. Anderson,
J. West,
2024
27
Tumor-immune metaphenotypes orchestrate an evolutionary bottleneck that promotes metabolic transformation
Frontiers in Immunology
J. West,
F. Rentzeperis,
C. Adam,
R. Bravo,
K. Luddy,
M. Robertson-Tessi,
A. Anderson,
2024
26
Treatment of evolving cancers will require dynamic decision support
Annals of Oncology
M. Strobl,
J. Gallaher,
M. Robertson-Tessi,
J. West,
A. Anderson,
2023
25
24
A pilot study of donor-engrafted clonal hematopoiesis evolution and clinical outcomes in allogeneic hematopoietic cell transplant recipients using a national registry
Transplantation and Cellular Therapy
N. Gillis,
E. Padron,
T. Wang,
K. Chen,
S. Spellman,
S. Lee,
C. Kitko,
M. MacMillan,
J. West,
Y. Tang,
M. Teng,
S. McNulty,
T. Druley,
J. Pidala,
A. Lazaryan,
2023
23
Inter- and intra-metastatic heterogeneity shapes adaptive therapy cycling dynamics
J. Gallaher,
M. Strobl,
J. West,
J. Zhang,
R. Gatenby,
M. Robertson-Tessi,
A. Anderson,
2023
22
A survey of open questions in adaptive therapy: bridging mathematics and clinical translation
eLife
J. West,
F. Adler,
J. Gallaher,
M. Strobl,
R. Brady-Nicholls,
J. Brown,
M. Robertson-Tessi,
E. Kim,
R. Noble,
Y. Viossat,
D. Basanta,
A. Anderson,
2023
21
Working With Convex Responses: Antifragility From Finance to Oncology
Entropy
N. Taleb,
J. West,
2023
20
Agent-based methods facilitate integrative science in cancer
Trends in Cell Biology
J. West,
M. Robertson-Tessi,
A. Anderson,
2022
19
Homeostasis limits keratinocyte evolution
Proceedings of the National Academy of Sciences
R. Schenck,
E. Kim,
R. Bravo,
J. West,
S. Leedham,
D. Shibata,
A. Anderson,
2022
18
Mistic: an open-source multiplexed image t-SNE viewer
Patterns
S. Prabhakaran,
C. Gatenbee,
M. Robertson-Tessi,
J. West,
A. Beg,
J. Gray,
S. Antonia,
R. Gatenby,
A. Anderson,
2022
17
Spatial structure impacts adaptive therapy by shaping intra-tumoral competition
Communications Medicine
M. Strobl,
J. Gallaher,
J. West,
M. Robertson-Tessi,
P. Maini,
A. Anderson,
2022
16
Immunosuppressive niche engineering at the onset of human colorectal cancer
Nature Communications
C. Gatenbee,
A. Baker,
R. Schenck,
M. Strobl,
J. West,
M. Neves,
S. Hasan,
E. Lakatos,
P. Martinez,
W. Cross,
M. Jansen,
M. Rodriguez-Justo,
C. Whelan,
A. Sottoriva,
S. Leedham,
M. Robertson-Tessi,
T. Graham,
A. Anderson,
2022
15
Gattaca: Base pair resolution mutation tracking for somatic evolution studies using agent-based models
Molecular Biology and Evolution
R. Schenck,
G. Brosula,
J. West,
S. Leedham,
D. Shibata,
A. Anderson,
2022
14
Normal tissue architecture determines the evolutionary course of cancer
Nature Communications
J. West,
R. Schenck,
C. Gatenbee,
M. Roberston-Tessi,
A. Anderson,
2021
13
Turnover modulates the need for a cost of resistance in adaptive therapy
Cancer Research
M. Strobl,
J. West,
Y. Viossat,
M. Damaghi,
M. Robertson-Tessi,
J. Brown,
R. Gatenby,
P. Maini,
A. Anderson,
2021
12
The harsh microenvironment in early breast cancer selects for a Warburg phenotype
Proceedings of the National Academy of Sciences
M. Damaghi,
J. West,
M. Robertson-Tessi,
Liping Xu,
M. Ferrall-Fairbanks,
P. Stewart,
E. Persi,
B. Fridley,
P. Altrock,
R. Gatenby,
P. Sims,
A. Anderson,
R. Gillies,
2021
11
IsoMaTrix: a framework to visualize the isoclines of matrix games and quantify uncertainty in structured populations
Bioinformatics
J. West,
Yongqian Ma,
Artem Kaznatcheev,
A. Anderson,
2020
10
Towards multi-drug adaptive therapy
Cancer Research
J. West,
L. You,
J. Zhang,
R.A. Gatenby,
J. Brown,
P.K. Newton,
A. Anderson,
2020
9
Hybrid Automata Library: A flexible platform for hybrid modeling with real-time visualization
PLOS Computational Biology
R. Bravo,
E. Baratchart,
J. West,
R. Schenck,
A. Miller,
J. Gallaher,
C. Gatenbee,
D. Basanta,
M. Robertson-Tessi,
A. Anderson,
2020
8
Multidrug cancer therapy in metastatic castrate-resistant prostate cancer: An evolution-based strategy
Clinical Cancer Research
J. West,
M. Dinh,
J. Brown,
J. Zhang,
A. Anderson,
R. Gatenby,
2019
7
The immune checkpoint kick start: Optimization of neoadjuvant combination therapy using game theory
Journal of Clinical Oncology: Clinical Cancer Informatics
J. West,
M. Robertson-Tessi,
K. Luddy,
D. Park,
D. Williamson,
C. Harmon,
H. Khong,
J. Brown,
A. Anderson,
2019
6
Cellular interactions constrain tumor growth
Proceedings of the National Academy of Sciences
J. West,
P. Newton,
2019
5
Capitalizing on Competition: An Evolutionary Model of Competitive Release in Metastatic Castrate Resistant Prostate Cancer Treatment
Journal of Theoretical Biology
J. West,
Y. Ma,
P.K. Newton,
2018
4
Chemotherapeutic dose scheduling based on tumor growth rates provides a case for low-dose metronomic high-entropy therapies
Cancer Research
J. West,
P. Newton,
2017
3
The prisoner's dilemma as a cancer model
Convergent Science: Physical Oncology
J. West,
Z. Hasnain,
J. Mason,
P. Newton,
2016
2
An evolutionary model of tumor cell kinetics and the emergence of molecular heterogeneity driving Gompertzian growth
SIAM Review
J. West,
Z. Hasnain,
P. Newton,
2016
1
Experiments comparing precision of stereo-vision approaches for control of an industrial manipulator
Spring Tracts in Advanced Robotics
J. Yoder,
J. West,
E. Baumgartner,
M. Perrollaz,
M. Seelinger,
M. Robinson,
2013
Technical reports
6
Evolutionary exploitation of PD-L1 expression in hormone receptor positive breast cancer
J. West,
D. Park,
C. Harmon,
D. Williamson,
P. Ashcroft,
D. Maestrini,
A. Ardaseva,
R. Bravo,
P. Sahoo,
H. Khong,
K. Luddy,
M. Robertson-Tessi,
2018
5
Optimizing chemo-scheduling based on tumor growth rates
Mathematical Oncology Handbook
J. West,
P. Newton,
2018
4
3
Targeting the Untargetable: Predicting Pramlintide Resistance Using a Neural Network Based Cellular Automata
E. Kim,
R. Schenck,
J. West,
W. Cross,
V. Harris,
J. McKenna,
H. Cho,
E. Coker,
S. Lee-Kramer,
K. Tsai,
E. Flores,
C. Gatenbee,
2017
2
A Fuzzy Logic approach to collision avoidance in smart UAVs
Technical Report #CSSE12-05, Auburn University
Y. Ma,
J. West,
P. Newton,
2012
1
Urban Food Production season extension techniques
Internship Program (ORIP) Technical Report
J. West,
P. Ling,
P. Grewal,
2010