Jagdish Patel, Ph.D.

• Protein Modeling and Design
• Computer-Aided Drug Design
• Protein-Protein and Protein-Ligand Binding Affinity Prediction
• Protein Folding
• Protein Sequence-Structure-Function Relationships
• Membrane Proteins
• Application and Development of Free Energy Calculation Methods

Jagdish Patel joined the Department of Chemical and Biological Engineering as a tenure-track assistant professor in January 2023. Dr. Patel has bachelor’s degree in Pharmacy and master’s degree in Drug Discovery. He won a PhD scholarship from the University of Genova, Italy and obtained Ph.D. degree in Computational Chemistry at the Italian Institute of Technology, Genova, Italy. He worked as a research fellow for a year at the same institute. In the fall of 2015, he joined the Institute for Modeling Collaboration and Innovation at the University of Idaho as a postdoctoral fellow. In 2018, he was promoted and joined the Department of Biological Sciences as a research assistant professor. His lab is working on interdisciplinary and collaborative projects under a broad theme of developing and applying molecular modeling methods to understand protein sequence-structure-function relationships in biomolecular systems to design proteins and computer-aided drug design.

• Barnes JE, Lund-Anderson P, Patel JS*, Ytreberg FM*. The effect of mutations on binding interactions between the SARS-CoV-2 receptor binding domain and neutralizing antibodies B38 and CB6. Scientific Reports, 2022, 12:18819.
• Wang B, Zhang S, Llanos A, Tsakiridis E, Desjardins EM, Yabut JM, Green AE, Day EA, Smith BK, Lally JSV, Raphenya AR, McArthur AG, Kajimura S, Patel JS, Wade M, Morrison KM, Holloway AC, Steinberg GR*. Thermal neutral housing reveals that the pesticide chlorpyrifos causes obesity by inhibiting diet-induced thermogenesis. Nature Communications, 2021, 12, 5163.
• Gonzalez TR, Martin KP, Barnes JE, Patel JS*, Ytreberg FM*, Assessment of software methods for estimation of protein-protein relative binding affinity. PLoS One, 2020, 15(12): e0240573.
• Patel D, Barnes JE, Davies WIL, Stenkamp DL, Patel JS*, Short-wavelength-sensitive 2 (Sws2) visual photopigment models combined with atomistic molecular simulations to predict spectral peaks of absorbance. PLOS Computational Biology, 2020, 16(10): e1008212.
• Musilova Z*, Cortesi F, Matschiner M, Davies WIL, Patel JS, Stieb SM, De Busserolles F, Malmstrøm M, Tørresen OK, Brown CJ, Mountford JK, Hanel R, Stenkamp DL, Jakobsen KS, Carleton KL, Jentoft S, Marshall J, Salzburger W*. Vision using multiple distinct rod opsins in deep-sea fishes. Science, 2019, 364(6440):588-592.
• Patel JS*, Quates CJ, Johnson EL, Ytreberg FM*. Expanding the watch list for potential Ebola virus antibody escape mutations. PLOS One, 2019, 14(3): e0211093.
• Patel JS*, Brown CJ, Ytreberg FM, Stenkamp DL*. Predicting peak spectral sensitivities of vertebrate cone visual pigments using atomistic molecular simulations. PLOS Computational Biology, 2018, 14(1): e1005974.
• Patel JS*, Ytreberg FM. Fast calculation of protein-protein binding free energy using umbrella sampling with a coarse-grained model. Journal of Chemical Theory Computation, 2018, 14(2):991-997.
• Patel JS, Bertiotti A*, Ronsisvalle S, Rocchia W, Cavalli A*. Steered molecular dynamics simulations for studying protein-ligand interaction in cyclin-dependent kinase 5. Journal of Chemical Information and Modeling, 2014, 54(2):470-480.
• Patel JS, Branduardi D*, Masetti M, Rocchia W, Cavalli A*. Insights into ligand – protein binding from local mechanical response. Journal of Chemical Theory and Computation, 2011, 7(10):3368–3378.