Computational Biophysics and Bioinformatics

G. Li, S. Pahari, A. K. Murthy, S. Liang, R. Fragoza, H. Yu, and E. Alexov
SAAMBE-SEQ: a sequence-based method for predicting mutation effect on protein--protein binding affinity
Bioinformatics, 2020
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S. Pahari, G. Li, A. K. Murthy, S. Liang, R. Fragoza, H. Yu, and E. Alexov
SAAMBE-3D: Predicting effect of mutations on protein--protein interactions
International journal of molecular sciences, 21(7), 2563, 2020
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A. Chakravorty, S. Panday, S. Pahari, S. Zhao, and E. Alexov
Capturing the Effects of Explicit Waters in Implicit Electrostatics Modeling: Qualitative Justification of Gaussian-Based Dielectric Models in DelPhi
Journal of chemical information and modeling, 60(4), 2229-2246, 2020
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S. K. Panday, M. H. Shashikala, M. Koirala, S. Pahari, A. Chakvorty, Y. Peng, L. Li, Z. Jia, et al.
Modeling electrostatics in molecular biology: A tutorial of DelPhi and associated resources [Article v1. 0]
Living Journal of Computational Molecular Science, 1(2), 10841, 2019
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C. Li, Z. Jia, A. Chakravorty, S. Pahari, Y. Peng, S. Basu, M. Koirala, S. K. Panday, et al.
DelPhi suite: New developments and review of functionalities
Journal of computational chemistry, 40(28), 2502-2508, 2019
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S. Pahari, L. Sun, and E. Alexov
PKAD: a database of experimentally measured pKa values of ionizable groups in proteins
Database, 2019, 2019
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S. Pahari, L. Sun, and E. Alexov
Surface-Free Protocol for Computing PKA's (DelPhiPKa): Applications to Protein-Protein Interactions
Biophysical Journal, 116(3), 166a, 2019
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S. Pahari, L. Sun, S. Basu, and E. Alexov
DelPhiPKa: Including salt in the calculations and enabling polar residues to titrate
Proteins: Structure, Function, and Bioinformatics, 86(12), 1277-1283, 2018
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Computational Biophysics and Bioinformatics

Professor Emil Alexov Group

Journal Articles by S. Pahari

Conference Papers