This site is created only for teaching purposes. The site is maintained by H Kamberaj. If you have any remarks/comments, please contact me at km.ude.ubi|jarebmakh#km.ude.ubi|jarebmakh
I am an Associate Professor at International Balkan University, Skopje. My teaching interests include Information Theory, Electromagnetic Theory, General Physics, Algorithms, Discrete Mathematics, and Computer Programming. In addition, I work as an Adjunct Associate Professor at the State University of Tetovo, where I teach these modules: Theoretical Physics, Statistical Physics, Electrodynamics, and Medical Physics. I am also involved in research activities in the area such as Biophysics, Bioinformatics, Machine Learning, and Bio-inspired optimization.
Teaching Philosophy Statement: here
Research Projects Statement: here
Books:
- H. Kamberaj, MOLECULAR DYNAMICS SIMULATIONS IN STATISTICAL PHYSICS. Theory and Applications, To be Submitted Soon, 2018. (Download Sample Chapters here)
- H. Kamberaj, General Physics I. Mechanics, To be Submitted Soon, 2018. (Download Sample Chapters here)
A list of selected peer-reviewed publications:
2014-2018
- H.Kamberaj, Advanced Methods Used in Molecular Dynamics Simulation of Macromolecules, in Mechanical Design, Materials and Manufacturing, Nova Science Publishers, Inc., 2018 PDF file. (https://novapublishers.com/shop/mechanical-design-materials-and-manufacturing/)
- H. Kamberaj, Faster Protein Folding Using Enhanced Conformational Sampling of Molecular Dynamics Simulation, Journal of Molecular Graphics and Modelling, 81, 32-49, 2018 (https://www.sciencedirect.com/science/article/pii/S109332631730654X).
- R.Izairi and H. Kamberaj, Comparison Study of Polar and Nonpolar Contributions to Solvation Free Energy, Journal of Chemical Information and Modeling, 57 (10), 2539-2553, 2017, http://dx.doi.org/10.1021/acs.jcim.7b00368
- H. Kamberaj, Sampling Convergence of Collective Motions in Proteins, Journal of Applied Physical Science International, 8(3), 101-112, 2017.[Abstract]
- H. Kamberaj, Replica Exchange Using q-Gaussian Swarm Quantum Particle Intelligence Method, Engineering and Applied Sciences, 1(2), 20-25, 2016.
- H. Kamberaj, Conformational Sampling Enhancement of Replica Exchange Molecular Dynamics Simulations Using Swarm Particle Intelligence, The Journal of Chemical Physics, 143, 124105, 2015.[pdf]
- H. Kamberaj, Q-Gaussian Swarm Quantum Particle Intelligence on Predicting Global Minimum of Potential Energy Function, Applied Mathematics and Computation, 229, 94-106, 2014.
2009-2013
- J. Spiriti, H. Kamberaj, A. de Graff, M. F. Thorpe and A. van der Vaart, DNA bending through large angles is aided by ionic screening, Journal of Chemical Theory and Computation, 8 (6), 2145–2156, 2012.
- J. Spiriti, H. Kamberaj, and A. van der Vaart, Development and application of enhanced sampling techniques to simulate the long-time scale dynamics of biomolecular systems, International Journal of Quantum Chemistry, 112, 33-43, 2012.
- H. Kamberaj, A Theoretical Model for the Collective Motion of Proteins by Means of Principal Component Analysis, Open Physics (former Central European Journal of Physics), 9(1), 96-109, 2011.
- H. Kamberaj and A. van der Vaart, Extracting the causality of correlated motions from molecular dynamics simulations, Biophysical Journal, 97(6), 1747-1755, 2009.
- H. Kamberaj and A. van der Vaart, An optimized replica exchange method for molecular dynamics simulations, The Journal of Chemical Physics, 130, 074904 2009.
- H. Kamberaj and A. van der Vaart, Correlated Motions and Interactions at the Onset of the DNA-Induced Partial Unfolding of Ets-1, Biophysical Journal, 96, 1307-1317, 2009.
2004-2008
- H. Kamberaj and A. van der Vaart, Multiple scaling replica exchange method for the efficient sampling of biomolecular systems, The Journal of Chemical Physics, 127, 234102-7, 2007.
- H. Kamberaj, R.J. Low and M.P. Neal, “Correlation between molecular chirality and helical twisting power. A computer simulation study”, Molecular Physics, 104(3), 335-357, 2006.
- M.P. Neal, H. Kamberaj and R.J. Low, “Some calculations of molecular chirality”, Mol. Cryst. Liq. Cryst., 439, 1937-1943, 2005.
- H. Kamberaj, R.J. Low and M.P. Neal, “Molecular structure and helical twisting power”, Ferroelectrics, 315, 183-196, 2005.
- H. Kamberaj, R.J. Low and M.P. Neal, “Symplectic and time reversible integrators for molecular dynamics simulations of rigid molecules”, The Journal of Chemical Physics, 122(22), 224114, 2005.
- H. Kamberaj, M. A. Osipov, R.J. Low and M.P. Neal, “Helical twisting power and chirality indices”, Molecular Physics, 102(5), 431-446, 2004.
2001-2003
- H. Kamberaj, R.J. Low and M.P. Neal, “Symplectic and time reversible integrators for rigid bodies”, System Science, 29(2), 31-45, 2003.
- H. Kamberaj and V. Helms, “Monte Carlo simulation of biomolecular systems with BIOMCSIM”, Computer Physics Communications, Vol. 141 (3), 375-402, 2001.
Master Thesis:
- Blerta Rahmani (2018-Present), Dynamics and their time scales in complex macromolecular systems, State University of Tetovo.
- Festim Kamberi (2018-Present), Development of a Web-Based University Career Network Center, International Balkan University.
- Dhurata Nebiu (2017-2018), Local and Average Transfer Entropy as an Information Flow Measure, International Balkan University.
- Granit Nebiu (2017-2018), The Semantics of Web Design and Development, International Balkan University.
- Redona Izairi (2016-2018), Study of Protein-Protein Interactions Using Molecular Dynamics Simulation Methods, State University of Tetovo.
Undergraduate Thesis:
- Lirim Dauti, Developing Mobile Applications Using Xamarin, International Balkan University, Skopje, R. of Macedonia, 2018.
- Merjem Hoxha, Website design and development using C#, International Balkan University, Skopje, R. of Macedonia, 2018.
- Ridvan Suleyman, Study of parallel processing in distributed environment machines using C++ programming language, International Balkan University, Skopje, R. of Macedonia, 2018.
- Edon Selimi, Application of a web-based service for analyzing the performance of the IBU academic staff, International Balkan University, Skopje, R. of Macedonia, 2018.
- Amina Kofrc, Online Database Management System, International Balkan University, Skopje, R. of Macedonia, 2018.
- Gazmend Rexhepi, IBU Study Curricula - Web Based Application, International Balkan University, Skopje, R. of Macedonia, 2018.
- Izudin Mamudi, Library Database Management System, Department of Information Technology, International Balkan University, Skopje, R. of Macedonia, 2018.
- Donika Rexhepi, Fundamental Concepts of Classical Cryptosystems, Department of Information Technology, International Balkan University, Skopje, R. of Macedonia, 2017.
- Haris Zenovic, Design and development of a web-based platform for teaching and learning, Department of Information Technology, International Balkan University, Skopje, R. of Macedonia, 2017.
- Festim Kamberi, Optimized University Students and Courses Information System, Department of Information Technology, International Balkan University, Skopje, R. of Macedonia, 2017.
- Argjent Haliti, Graphical User Interface for Data Analysis with Visual Molecular Dynamics Program Using Tcl/Tk, Department of Information Technology, International Balkan University, Skopje, R. of Macedonia, 2016.
- Skofiar Kamberi, Design and Application of a Database for Students, Department of Information Technology, International Balkan University, Skopje, R. of Macedonia, 2015.
- Redona Izairi, Calculations of the Electronic Properties of Molecules using Computational Quantum Mechanics Models, Department of Physics, State University of Tetovo, Tetovo, R. of Macedonia, 2014.
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