C. Li, Z. Jia, A. Chakravorty, S. Pahari, Y. Peng, S. Basu, M. Koirala, S. K. Panday, M. Petukh, L. Li, and others. DelPhi suite: New developments and review of functionalities. Journal of computational chemistry, John Wiley \& Sons, Inc. Hoboken, USA, volume 40, issue 28, pages 2502-2508, 2019.

M. Petukh, L. Dai, and E. Alexov. SAAMBE: webserver to predict the charge of binding free energy caused by amino acids mutations. International journal of molecular sciences, Multidisciplinary Digital Publishing Institute, volume 17, issue 4, pages 547, 2016.

I. Getov, M. Petukh, and E. Alexov. SAAFEC: predicting the effect of single point mutations on protein folding free energy using a knowledge-modified MM/PBSA approach. International journal of molecular sciences, Multidisciplinary Digital Publishing Institute, volume 17, issue 4, pages 512, 2016.

I. Getov, M. Petukh, and E. Alexov. Predicting folding free energy changes caused by single point mutations via combined usage of MM-PBSA method and biophysical characteristics. ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, volume 250, 2015.

M. Petukh, J. Morrison, M. Li, A. Panchenko, and E. Alexov. SAMBE: The New Webserver for Predicting the Effect of nssNP on the Protein-Protein Binding Free Energy. Biophysical Journal, Elsevier, volume 108, issue 2, pages 157a-158a, 2015.

M. Petukh, M. Zhang, and E. Alexov. Statistical investigation of surface bound ions and further development of BION server to include p H and salt dependence. Journal of computational chemistry, volume 36, issue 32, pages 2381-2393, 2015.

M. Petukh, M. Li, and E. Alexov. Predicting binding free energy change caused by point mutations with knowledge-modified MM/PBSA method. PLoS computational biology, Public Library of Science San Francisco, CA USA, volume 11, issue 7, pages e1004276, 2015.

M. Petukh, T. G. Kucukkal, and E. Alexov. On human disease-causing amino acid variants: Statistical study of sequence and structural patterns. Human mutation, volume 36, issue 5, pages 524-534, 2015.

T. G. Kucukkal, M. Petukh, L. Li, and E. Alexov. Structural and physico-chemical effects of disease and non-disease nsSNPs on proteins. Current opinion in structural biology, Elsevier Current Trends, volume 32, pages 18-24, 2015.

B. Campbell, M. Petukh, E. Alexov, and C. Li. On the electrostatic properties of homodimeric proteins. Journal of Theoretical and Computational Chemistry, World Scientific Publishing Company, volume 13, issue 3, pages 1440007, 2014.

M. Petukh and E. Alexov. Ion binding to biological macromolecules. Asian journal of physics: an international quarterly research journal, NIH Public Access, volume 23, issue 5, pages 735, 2014.

M. Petukh, B. Wu, S. Stefl, N. Smith, D. Hyde-Volpe, L. Wang, and E. Alexov. Chronic beryllium disease: revealing the role of beryllium ion and small peptides binding to HLA-DP2. PLoS One, Public Library of Science, volume 9, issue 11, pages e111604, 2014.

T. Kimmett, N. Smith, S. Witham, M. Petukh, S. Sarkar, and E. Alexov. ProBLM web server: protein and membrane placement and orientation package. Computational and mathematical methods in medicine, Hindawi, volume 2014, 2014.

M. Li, M. Petukh, E. Alexov, and A. R. Panchenko. Predicting the impact of missense mutations on protein--protein binding affinity. Journal of chemical theory and computation, American Chemical Society, volume 10, issue 4, pages 1770-1780, 2014.

L. Boccuto, K. Aoki, H. Flanagan-Steet, C.-F. Chen, X. Fan, F. Bartel, M. Petukh, A. Pittman, R. Saul, A. Chaubey, and others. A mutation in a ganglioside biosynthetic enzyme, ST3GAL5, results in salt \& pepper syndrome, a neurocutaneous disorder with altered glycolipid and glycoprotein glycosylation. Human molecular genetics, Oxford University Press, volume 23, issue 2, pages 418-433, 2014.

M. Petukh, A. Panchenko, and E. Alexov. Electrostatics plays significant role in changes of the protein-protein affinity due to missense mutations. ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, volume 246, 2013.

C. Li, M. Petukh, L. Li, and E. Alexov. Multi-Level and Interleaved Poisson-Boltzmann (MLIPB) Method for Parallel Computing of the Electrostatics and its Application in Delphi. Biophysical Journal, Elsevier, volume 104, issue 2, pages 507a, 2013.

M. Petukh, C. Li, and E. Alexov. Predicting non-specifically bound ions: Application to BION webserver and beryllium disease. Biophysical Journal, Elsevier, volume 104, issue 2, pages 506a, 2013.

M. Petukh, T. Kimmet, and E. Alexov. BION web server: predicting non-specifically bound surface ions. Bioinformatics, Oxford University Press, volume 29, issue 6, pages 805-806, 2013.

C. Li, M. Petukh, L. Li, and E. Alexov. Continuous development of schemes for parallel computing of the electrostatics in biological systems: Implementation in DelPhi. Journal of computational chemistry, Wiley Online Library, volume 34, issue 22, pages 1949-1960, 2013.

Z. Zhang, S. Witham, M. Petukh, G. Moroy, M. Miteva, Y. Ikeguchi, and E. Alexov. A rational free energy-based approach to understanding and targeting disease-causing missense mutations. Journal of the American Medical Informatics Association, BMJ Publishing Group BMA House, Tavistock Square, London, WC1H 9JR, volume 20, issue 4, pages 643-651, 2013.

Z. Zhang, Y. Zheng, M. Petukh, A. Pegg, Y. Ikeguchi, and E. Alexov. Enhancing human spermine synthase activity by engineered mutations. PLoS Comput Biol, Public Library of Science, volume 9, issue 2, pages e1002924, 2013.

C. Li, L. Li, M. Petukh, and E. Alexov. Progress in developing Poisson-Boltzmann equation solvers. Computational and Mathematical Biophysics, De Gruyter, volume 1, issue 1, pages 42-62, 2013.

M. Petukh, S. Stefl, and E. Alexov. The role of protonation states in ligand-receptor recognition and binding. Current pharmaceutical design, Bentham Science Publishers, volume 19, issue 23, pages 4182-4190, 2013.

S. Stefl, H. Nishi, M. Petukh, A. R. Panchenko, and E. Alexov. Molecular mechanisms of disease-causing missense mutations. Journal of molecular biology, Academic Press, volume 425, issue 21, pages 3919-3936, 2013.

M. Petukh, M. Zhenirovskyy, C. Li, L. Li, L. Wang, and E. Alexov. Predicting nonspecific ion binding using DelPhi. Biophysical journal, Elsevier, volume 102, issue 12, pages 2885-2893, 2012.

L. Li, C. Li, S. Sarkar, J. Zhang, S. Witham, Z. Zhang, L. Wang, N. Smith, M. Petukh, and E. Alexov. DelPhi: a comprehensive suite for DelPhi software and associated resources. BMC biophysics, BioMed Central, volume 5, issue 1, pages 1-11, 2012.