Jonathan Colen

Jonathan Colen

Guiding discovery in science and health using AI/ML

Publications

You can also find my articles on my Google Scholar profile.

Training set augmentation and biology-aware harmonization improve radiomic models for lung cancer prediction in indeterminate nodules

C. Huchthausen, M. Shi, G.L.A. de Sousa, J. Larner, E. Janowski, J. Colen, and K. Wijesooriya
Scientific Reports, 2026

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Learning to model pediatric asthma exacerbation from multiple risk factors: a case study in coastal Virginia

J. Colen, E. Werner, M. Golbazi, H. Richter, D. McSpadden, A. Quinn, J. Santos, M.J. Darling, and M.M. Gleason
In Review, 2026

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Forecasting time-dependent radiation induced lymphocyte depletion in a clinical trial on early-stage lung cancer

C. Nguyen, J. Chen, J. Larner, J. Colen, and K. Wijesooriya
In Revision, 2026

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Explainable physics-based constraints on reinforcement learning for accelerator optimization

J. Colen, M. Schram, K. Rajput, and A. Kasparian
Machine Learning: Science and Technology, 2026

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Sociohydrodynamics: data-driven modelling of social behavior

D. Seara, J. Colen, M. Fruchart, Y. Avni, D. Martin, and V. Vitelli
Proceedings of the National Academy of Sciences, 2025

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Harnessing the Power of Gradient-Based Simulations for Multi-Objective Optimization in Particle Accelerators

K. Rajput, M. Schram, A. Edelen, J. Colen, A. Kasparian, R. Roussel, A. Carpenter, H. Zhang, and J. Benesch
Machine Learning: Science and Technology, 2025

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Interpreting neural operators: how nonlinear waves propagate in non-reciprocal solids

J. Colen*, A. Poncet*, D. Bartolo, and V. Vitelli
Physical Review Letters, 2024

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Predicting radiation-induced immune suppression in lung cancer patients treated with stereotactic body radiation therapy

J. Colen*, C. Nguyen*, S.W. Liyanage, E. Aliotta, J. Chen, C. Alonso, K. Romano, S. Peach, T. Showalter, P. Read, J. Larner, and K. Wijesooriya
Medical Physics, 2024

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Motor crosslinking augments elasticity in active nematics

S.A. Redford, J. Colen, J.L. Shivers, S. Zemsky, M. Molaei, C. Floyd, P.V. Ruijgrok, V. Vitelli, Z. Bryant, A.R. Dinner, and M.L. Gardel
Soft Matter, 2024

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Machine learning interpretable models of cell mechanics from protein images

M. Schmitt*, J. Colen*, S. Sala, J. Devany, S. Seetharaman, A. Caillier, M.L. Gardel, P.W. Oakes, and V. Vitelli
Cell, 2024

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Learning a conserved mechanism for early neuroectoderm morphogenesis

M. Lefebvre*, J. Colen*, N. Claussen*, F. Brauns, M. Raich, N.P. Mitchell, M. Fruchart, V. Vitelli, and S. Streichan
In Revision, 2023

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Negative group velocity and Kelvin-like wake pattern

E. Kolomeisky, J. Colen, and J.P. Straley
Physical Review B, 2022

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PINT: A modern software package for pulsar timing

J. Luo, S. Ransom, P. Demorest, P.S. Ray, A. Archibald, M. Kerr, R.J. Jennings, M. Bachetti, R. van Haasteren, C.A. Champagne, J. Colen, C. Phillips, J. Zimmerman, K. Stovall, M.T. Lam, and F.A. Jenet
The Astrophysical Journal, 2021

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Machine learning active-nematic hydrodynamics

J. Colen*, M. Han*, R. Zhang, S.A. Redford, L.M. Lenna, L. Morgan, P.V. Ruijgrok, R. Adkins, Z. Bryant, Z. Dogic, M.L. Gardel, J. J. de Pablo, and V. Vitelli
Proceedings of the National Academy of Sciences, 2021

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Kelvin-Froude wake patterns of a traveling pressure disturbance

J. Colen and E. Kolomeisky
European Journal of Mechanics B/Fluids, 2021

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PINT: High-precision pulsar timing analysis package

J. Luo, S. Random, P. Demorest, R. van Haasteren, P.S. Ray, K. Stovall, M. Bachetti, A. Archibald, M. Kerr, J. Colen, and F. Jenet
Astrophysics Source Code Library, 2019

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Elastic and electronic tuning of magnetoresistance in MoTe2

J. Yang, J. Colen, J. Liu, M.C. Nguyen, G.W. Chern, and D. Louca
Science Advances, 2017

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