Limits to detecting epistasis in the fitness landscape of HIV von Biswas, Avik, Haldane, Allan, Levy, Ronald M

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Potts Hamiltonian Models and Molecular Dynamics Free Energy Simulations for Predicting the Impact of Mutations on Protein Kinase Stability von Thakur, Abhishek, Gizzio, Joan, Levy, Ronald M.

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Mi3-GPU: MCMC-based inverse Ising inference on GPUs for protein covariation analysis von Haldane, Allan, Levy, Ronald M.

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Potts Hamiltonian models of protein co-variation, free energy landscapes, and evolutionary fitness von Levy, Ronald M, Haldane, Allan, Flynn, William F

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Insights into the energy landscapes of chromosome organization proteins from coevolutionary sequence variation and structural modeling von Levy, Ronald M.

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Intratumoral Immunization: A New Paradigm for Cancer Therapy von MARABELLE, Aurélien, KOHRT, Holbrook, CAUX, Christophe, LEVY, Ronald

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Theory of binless multi-state free energy estimation with applications to protein-ligand binding von Tan, Zhiqiang, Gallicchio, Emilio, Lapelosa, Mauro, Levy, Ronald M.

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Evolutionary sequence and structural basis for the distinct conformational landscapes of Tyr and Ser/Thr kinases von Gizzio, Joan, Thakur, Abhishek, Haldane, Allan, Post, Carol Beth, Levy, Ronald M.

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The generative capacity of probabilistic protein sequence models von McGee, Francisco, Hauri, Sandro, Novinger, Quentin, Vucetic, Slobodan, Levy, Ronald M., Carnevale, Vincenzo, Haldane, Allan

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Kinetic coevolutionary models predict the temporal emergence of HIV-1 resistance mutations under drug selection pressure von Biswas, Avik, Choudhuri, Indrani, Arnold, Eddy, Lyumkis, Dmitry, Haldane, Allan, Levy, Ronald M

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Contingency and Entrenchment of Drug-Resistance Mutations in HIV Viral Proteins von Choudhuri, Indrani, Biswas, Avik, Haldane, Allan, Levy, Ronald M.

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Advances in all atom sampling methods for modeling protein–ligand binding affinities von Gallicchio, Emilio, Levy, Ronald M

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Conformational Analysis of the DFG-Out Kinase Motif and Biochemical Profiling of Structurally Validated Type II Inhibitors von Vijayan, R. S. K., He, Peng, Modi, Vivek, Duong-Ly, Krisna C., Ma, Haiching, Peterson, Jeffrey R., Dunbrack, Roland L., Levy, Ronald M.

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Binding Energy Distribution Analysis Method (BEDAM) for Estimation of Protein−Ligand Binding Affinities von Gallicchio, Emilio, Lapelosa, Mauro, Levy, Ronald M

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Evolutionary divergence in the conformational landscapes of tyrosine vs serine/threonine kinases von Gizzio, Joan, Thakur, Abhishek, Haldane, Allan, Levy, Ronald M

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Therapeutic antitumor immunity by checkpoint blockade is enhanced by ibrutinib, an inhibitor of both BTK and ITK von Sagiv-Barfi, Idit, Kohrt, Holbrook E. K., Czerwinski, Debra K., Ng, Patrick P., Chang, Betty Y., Levy, Ronald

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Predicting HLA class II antigen presentation through integrated deep learning von Chen, Binbin, Khodadoust, Michael S., Olsson, Niclas, Wagar, Lisa E., Fast, Ethan, Liu, Chih Long, Muftuoglu, Yagmur, Sworder, Brian J., Diehn, Maximilian, Levy, Ronald, Davis, Mark M., Elias, Joshua E., Altman, Russ B., Alizadeh, Ash A.

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Intratumoral Immunotherapy for Early-stage Solid Tumors von Hong, Wan Xing, Haebe, Sarah, Lee, Andrew S, Westphalen, C Benedikt, Norton, Jeffrey A, Jiang, Wen, Levy, Ronald

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Unique features of different classes of G‐protein‐coupled receptors revealed from sequence coevolutionary and structural analysis von Do, Hung N., Haldane, Allan, Levy, Ronald M., Miao, Yinglong

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Circulating Tumor DNA Measurements As Early Outcome Predictors in Diffuse Large B-Cell Lymphoma von Kurtz, David M, Scherer, Florian, Jin, Michael C, Soo, Joanne, Craig, Alexander F M, Esfahani, Mohammad Shahrokh, Chabon, Jacob J, Stehr, Henning, Liu, Chih Long, Tibshirani, Robert, Maeda, Lauren S, Gupta, Neel K, Khodadoust, Michael S, Advani, Ranjana H, Levy, Ronald, Newman, Aaron M, Dührsen, Ulrich, Hüttmann, Andreas, Meignan, Michel, Casasnovas, René-Olivier, Westin, Jason R, Roschewski, Mark, Wilson, Wyndham H, Gaidano, Gianluca, Rossi, Davide, Diehn, Maximilian, Alizadeh, Ash A

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