Authors of all published work produced using MBN Explorer should include the following primary citation:
MBN Explorer principal citation:
Ilia A. Solov'yov, Alexander V. Yakubovich, Pavel V. Nikolaev, Ilya Volkovets, and Andrey V. Solov'yov,
Meso Bio Nano Explorer - a universal program for multiscale computer simulations of complex molecular structure and dynamics,
Journal of Computational Chemistry 33, pp. 2412-2439 (2012) (link)
Authors of all published work using the special algorithms should include the following additional citations:
Reactive CHARMM force field, reactive molecular dynamics, or molecular mechanics with dynamical topology:
Gennady B. Sushko, Ilia A. Solov’yov, Alexey V. Verkhovtsev, Sergey Volkov, and Andrey V. Solov’yov,
Studying chemical reactions in biological systems with MBN Explorer: Implementation of molecular mechanics with dynamical topology,
European Physical Journal D 70, 12 (2016) (link)
Irradiation-driven molecular dynamics:
Gennady B. Sushko, Ilia A. Solov’yov, and Andrey V. Solov’yov,
Molecular dynamics for irradiation driven chemistry: application to the FEBID process,
European Physical Journal D 70, 217 (2016). (link)
Interfacing molecular dynamics and Monte Carlo simulations:
P. de Vera, M. Azzolini, G. Sushko, I. Abril, R. Garcia-Molina, M. Dapor, I.A. Solov'yov, and A.V. Solov'yov,
Multiscale simulation of the focused electron beam induced deposition process,
Scientific Reports 10, 20827 (2020) (link)
Generalized correction to embedded-atom potentials:
A.V. Verkhovtsev, A.V. Korol, G.B. Sushko, S. Schramm, and A.V. Solov'yov,
Generalized correction to embedded-atom potentials for simulation of equilibrium and nonequilbrium properties of metals,
St. Petersburg Polytechnical State University Journal. Physics and Mathematics 13(3), pp. 23-41 (2020) (link)
Kinetic Monte Carlo approach and random walk dynamics:
Mikhail Panshenskov, Ilia A. Solov'yov, and Andrey V. Solov'yov,
Efficient 3D kinetic Monte Carlo method for modeling of molecular structure and dynamics,
Journal of Computational Chemistry 35, pp. 1317-1329 (2014) (link)
Stochastic dynamics:
Ilia A. Solov'yov, Gennady Sushko, Ida Friis, and Andrey V. Solov'yov,
Multiscale modeling of stochastic dynamics processes with MBN Explorer,
Journal of Computational Chemistry 43, pp. 1442-1458 (2022) (link)
Relativistic integrator and atomistic relativistic molecular dynamics:
Gennady B. Sushko, Victor G. Bezchastnov, Ilia A. Solov'yov, Andrei V. Korol, Walter Greiner, and Andrey V. Solov'yov,
Simulation of ultra-relativistic electrons and positrons channeling in crystals with MBN Explorer,
Journal of Computational Physics 252, pp. 404-418 (2013) (link)
Radiation damping force in relativistic molecular dynamics:
G.B. Sushko, A.V. Korol, and A.V. Solov'yov,
Atomistic modeling of the channeling process with radiation reaction force included,
Nuclear Instruments and Methods B 535, pp. 117-125 (2023) (link)
Particle beam emittance in relativistic molecular dynamics:
G.B. Sushko, A.V. Korol, and A.V. Solov'yov,
Ultra-relativistic electron beams de ection by quasi-mosaic crystals,
European Physical Journal D 76, 236 (2022) (link)
Ionizing collisions in relativistic molecular dynamics:
G.B. Sushko, A.V. Korol, and A.V. Solov'yov,
Atomistic modeling of the channeling process with and without account for ionizing collisions: A comparative study,
Nuclear Instruments and Methods B 569, 165911 (2025) (link)
Molecular dynamics of MBN systems in external fields:
G.B. Sushko, A.V. Korol, and A.V. Solov'yov,
Chapter 11 - Relativistic molecular dynamics,
in book by A.V. Verkhovtsev, I.A. Solov'yov, G.B. Sushko, A.V. Korol, A.V. Solov'yov, MBN Explorer and MBN Studio Tutorials: Version 5.0, MesoBioNano Science Publishing, Frankfurt am Main, Germany (2024) (link)
Proper citation is essential for the continued development of MBN Explorer, as it is one of the main ways we demonstrate the value of our software to the scientific community. Thank you for paying attention to these details.