My long-term research interest is to explore the main functioning principles and emergent collective behaviour of such mechanochemical and mechanosensing proteins that underlie molecular processes accountable for the inner organization of living cells and cellular response to environmental cues. In future, this may help to better understand potential roles of this type of proteins in multiple human related diseases, providing new possible directions for their diagnosis and treatment
PI: Prof. Jie Yan.
Project title 1: Application of force-spectroscopy methods for investigation of DNA-binding properties of architectural proteins, and exploration of DNA-protein interactions under applied mechanical constraints.
Project title 2: Role of myosin II motor proteins and formins in filopodia dynamics (independent research in collaboration with Prof. Alexander Bershadsky lab).
PI: Assoc. Prof. Michael R. Diehl.
Project title: Studying of molecular motors cooperation in intracellular transportation.
PI: Assoc. Prof. Zhisong Wang and Prof. Jianshu Cao.
Project title 1: Studying of general physical principles underlying the molecular motors' working mechanism.
Project title 2: Investigation of the cytoadhesion properties of malaria infected red blood cells in shear flow.
PI: Prof. Fazly I. Ataullakhanov, D.Sc. and Prof. Richard J. McIntosh.
Project title: Investigation of kinetochore-microtubule interactions in higher and lower eukaryotes.
PI: Prof. Fazly I. Ataullakhanov, D.Sc.
Project title: Mathematical modeling of microtubule dynamics.
Managing a computational / theoretical project aimed at establishing of an on-line server that would allow visitors of our web-site to run highly advanced transfer-matrix calculations in order to predict the structure and conformation of DNA interacting with any desirable DNA-binding protein under force and torque constraints applied to the DNA, see detailed description of the project in the attached pdf file. Managed research group working on this project involves one PhD student (Ladislav Hovan) and one Research Assistant (Yang Kaiyuan). Current version of the on-line program can be found via the following web-link: HERE
Number of currently and previously co-supervised graduate students: 6.
I have been teaching a lecture course, which I have prepared by myself, that describes the major experimental and theoretical biophysical methods widely used in modern single-molecule studies to Master and PhD students starting from early 2016. The course has got many positive feedbacks from students and achieved one of the highest scores among the teaching modules of level 5 (highest university level) taught to Master and PhD students in National University of Singapore, Physics Department, see the attached pdf file containing the detailed module evaluation.
Title of the thesis: "Study of microtubules interaction with chromosome kinetochores"
Title of the thesis: "Investigation of kinetochore-microtubule interactions in higher and lower eukaryotes"
Title of the thesis: "Mechanical model of microtubule"
Title of the thesis: "Mathematical modeling of microtubule dynamics"
Recently, I have started and been actively working on two independent research projects. Both projects have demonstrated a strong potential in gaining new important insights into the role of intracellular and extracellular mechanical forces in regulation of the chromatin structure as well as in modulation of the dynamics of cell adhesion complexes responsible for the guidance of cell migration, warranting future research in these two directions.
Project 1: Experimental study of molecular mechanisms involved in regulation of the cell filopodia dynamics and adhesion properties.
The process of cell migration plays the central role in the development and maintenance of multicellular organisms. Wounds healing, immune response to exogenous pathogens, embryonic tissues formation - these are just a few examples of a large number of vital biological processes that rely on highly ordered collective cell migration, which is required for proper organism functioning.
Project 2: Development of a general theoretical framework for description of DNA-protein interactions under force and torque constraints.
The second project is devoted to studying the role of mechanical forces in regulation of DNA-protein interactions, which has been recently suggested to be of large importance in cell-generated response to environmental cues.
If you use the source code of any of the programs listed below, please, cite the corresponding publications by our research group.
Matlab programs (written by Artem Efremov):
C++ programs (translate from Matlab by Ladislav Hovan):