Alexey Shaitan

Publications¹³

• Article Shaitan A., Комарова Г. А., Timokhin G., Грибкова А. К., Алексеев В. И., Бигильдеев А. Е. The Role of Changes in Structure and Dynamics of Chromatin due to COVID-19 / Пер. с рус. // Russian Journal of Genetics. 2024. Vol. 60. No. 1. P. 11-31. doi (in press)
• Chapter Alekseev K., Poptsova M., Shaitan A. High-throughput computational design of protein binders for complex targets using deep learning models, in: Proceedings of 11th Moscow Conference on Computational Molecular Biology MCCMB'23. IITP RAS, 2023.
• Article Nikita A. Kosarim, Armeev G. A., Alexey K. Shaytan, Kirpichnikov M. P. Analysis of Ion Atmosphere Around Nucleosomes Using Supercomputer MD Simulations // Supercomputing Frontiers and Innovations. 2022. Vol. 9. No. 2. P. 56-67. doi
• Article Sivkina A., Karlova M., McCullough L., Formosa T., Shaitan A., Feofanov A., Kirpichnikov M., Sokolova O., Studitsky V. Electron microscopy analysis of ATP-independent nucleosome unfolding by FACT // Communications Biology. 2022. Vol. 5. No. 1. Article 2. doi
• Article Shaitan A., Novikov R., Vinnikov R., Gribkova A., Glukhov G. From DNA-protein interactions to the genetic circuit design using CRISPR-dCas systems // Frontiers in Molecular Biosciences. 2022. Vol. 9. Article 1070526.
• Article Armeev G., Gribkova A., Shaitan A. Nucleosomes and their complexes in the cryoEM era: Trends and limitations // Frontiers in Molecular Biosciences. 2022. Vol. 9. Article 1070489. doi
• Article Armeev G., Kniazeva A., Komarova G., Kirpichnikov M., Shaytan A. Histone dynamics mediate DNA unwrapping and sliding in nucleosomes // Nature Communications. 2021. Vol. 12. Article 2387. doi
• Article Espiritu D., Gribkova A., Gupta S., Shaytan A., Panchenko A. Molecular Mechanisms of Oncogenesis through the Lens of Nucleosomes and Histones // Journal of Physical Chemistry B. 2021. Vol. 125. No. 16. P. 3963-3976. doi
• Article Novikov R., Armeev G., Gribkova A., Kacher J., Gluhov G., Shaitan A. Detecting Cas9-sgRNA Complex Interactions with DNA via Fluorescent Microscopy: Computer Simulations of Experimental Designs // Microscopy and Microanalysis. 2020. Vol. 26. No. S2. P. 310-311. doi
• Article Armeev G., Panchenko A., Feofanov A., Shaitan A. Integrative Modeling of Nucleosomes and Supranucleosomal Structures // Biophysical Journal. 2020. Vol. 118. No. 3S1. Article 318-Pos. doi
• Article Hada A., Hota S., Luo J., Lin Y., Kale S., Shaitan A., Bhardwaj S., Persinger J., Ranish J., Panchenko A., Bartholomew B. Histone Octamer Structure Is Altered Early in ISW2 ATP-Dependent Nucleosome Remodeling // Cell Reports. 2019. Vol. 28. No. 1. P. 282-294. doi
• Article Армеев Г. А., Грибкова А. К., Поспелова Ю., Комарова Г. А., Shaitan A. Linking chromatin composition and structural dynamics at the nucleosome level // Current Opinion in Structural Biology. 2019. Vol. 56. P. 46-55. doi
• Article Shaitan A., Xiao H., Armeev G. A., Gaykalova D. A., Komarova G. A., Wu C., Studitsky V. M., Panchenko A. R. Structural interpretation of DNA-protein hydroxyl-radical footprinting experiments with high resolution using HYDROID // Nature Protocols. 2018. Vol. 13. No. 1. P. 2535-2556. doi