Defining the substrate envelope of SARS-CoV-2 main protease to predict and avoid drug resistance von Shaqra, Ala M., Zvornicanin, Sarah N., Huang, Qiu Yu J., Lockbaum, Gordon J., Knapp, Mark, Tandeske, Laura, Bakan, David T., Flynn, Julia, Bolon, Daniel N. A., Moquin, Stephanie, Dovala, Dustin, Kurt Yilmaz, Nese, Schiffer, Celia A.

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Comprehensive fitness landscape of SARS-CoV-2 Mpro reveals insights into viral resistance mechanisms von Flynn, Julia M, Samant, Neha, Schneider-Nachum, Gily, Barkan, David T, Yilmaz, Nese Kurt, Schiffer, Celia A, Moquin, Stephanie A, Dovala, Dustin, Bolon, Daniel NA

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Experimental illumination of a fitness landscape von Hietpas, Ryan T, Jensen, Jeffrey D, Bolon, Daniel N.A

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A systematic survey of an intragenic epistatic landscape von Bank, Claudia, Hietpas, Ryan T, Jensen, Jeffrey D, Bolon, Daniel N A

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Fitness analyses of all possible point mutations for regions of genes in yeast von Hietpas, Ryan, Roscoe, Benjamin, Jiang, Li, Bolon, Daniel N A

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Quantifying and understanding the fitness effects of protein mutations: Laboratory versus nature von Boucher, Jeffrey I., Bolon, Daniel N. A., Tawfik, Dan S.

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A bayesian MCMC approach to assess the complete distribution of fitness effects of new mutations: uncovering the potential for adaptive walks in challenging environments von Bank, Claudia, Hietpas, Ryan T, Wong, Alex, Bolon, Daniel N, Jensen, Jeffrey D

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Influenza virus drug resistance: a time-sampled population genetics perspective von Foll, Matthieu, Poh, Yu-Ping, Renzette, Nicholas, Ferrer-Admetlla, Anna, Bank, Claudia, Shim, Hyunjin, Malaspinas, Anna-Sapfo, Ewing, Gregory, Liu, Ping, Wegmann, Daniel, Caffrey, Daniel R, Zeldovich, Konstantin B, Bolon, Daniel N, Wang, Jennifer P, Kowalik, Timothy F, Schiffer, Celia A, Finberg, Robert W, Jensen, Jeffrey D

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Identification of a Permissive Secondary Mutation That Restores the Enzymatic Activity of Oseltamivir Resistance Mutation H275Y von Jiang, Li, Samant, Neha, Liu, Ping, Somasundaran, Mohan, Jensen, Jeffrey D, Marasco, Wayne A, Kowalik, Timothy F, Schiffer, Celia A, Finberg, Robert W, Wang, Jennifer P, Bolon, Daniel N A

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Systematic exploration of ubiquitin sequence, E1 activation efficiency, and experimental fitness in yeast von Roscoe, Benjamin P, Bolon, Daniel N A

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Molecular Determinants of Epistasis in HIV‑1 Protease: Elucidating the Interdependence of L89V and L90M Mutations in Resistance von Henes, Mina, Kosovrasti, Klajdi, Lockbaum, Gordon J, Leidner, Florian, Nachum, Gily S, Nalivaika, Ellen A, Bolon, Daniel N. A, Kurt Yilmaz, Nese, Schiffer, Celia A, Whitfield, Troy W

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Hydrophobic Core Flexibility Modulates Enzyme Activity in HIV-1 Protease von Mittal, Seema, Cai, Yufeng, Nalam, Madhavi N. L, Bolon, Daniel N. A, Schiffer, Celia A

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Latent effects of Hsp90 mutants revealed at reduced expression levels von Jiang, Li, Mishra, Parul, Hietpas, Ryan T, Zeldovich, Konstantin B, Bolon, Daniel N A

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Enzyme-like Proteins by Computational Design von Bolon, Daniel N., Mayo, Stephen L.

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An experimental evaluation of drug-induced mutational meltdown as an antiviral treatment strategy von Bank, Claudia, Renzette, Nicholas, Liu, Ping, Matuszewski, Sebastian, Shim, Hyunjin, Foll, Matthieu, Bolon, Daniel N. A., Zeldovich, Konstantin B., Kowalik, Timothy F., Finberg, Robert W., Wang, Jennifer P., Jensen, Jeffrey D.

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A Balance between Inhibitor Binding and Substrate Processing Confers Influenza Drug Resistance von Jiang, Li, Liu, Ping, Bank, Claudia, Renzette, Nicholas, Prachanronarong, Kristina, Yilmaz, Lutfu S., Caffrey, Daniel R., Zeldovich, Konstantin B., Schiffer, Celia A., Kowalik, Timothy F., Jensen, Jeffrey D., Finberg, Robert W., Wang, Jennifer P., Bolon, Daniel N.A.

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Evolution of the Influenza A Virus Genome during Development of Oseltamivir Resistance In Vitro von Renzette, Nicholas, Caffrey, Daniel R, Zeldovich, Konstantin B, Liu, Ping, Gallagher, Glen R, Aiello, Daniel, Porter, Alyssa J, Kurt-Jones, Evelyn A, Bolon, Daniel N, Poh, Yu-Ping, Jensen, Jeffrey D, Schiffer, Celia A, Kowalik, Timothy F, Finberg, Robert W, Wang, Jennifer P

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Analyses of the Effects of All Ubiquitin Point Mutants on Yeast Growth Rate von Roscoe, Benjamin P., Thayer, Kelly M., Zeldovich, Konstantin B., Fushman, David, Bolon, Daniel N.A.

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Pervasive contingency and entrenchment in a billion years of Hsp90 evolution von Starr, Tyler N., Flynn, Julia M., Mishra, Parul, Bolon, Daniel N. A., Thornton, Joseph W.

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Specificity versus Stability in Computational Protein Design von Bolon, Daniel N., Grant, Robert A., Baker, Tania A., Sauer, Robert T.

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