Research Goal
Our research activity is focused on computational and mathematical analysis of biological systems at their various levels of organisation, from molecular properties to cell behaviour and the role these play in the cell population dynamics. The main objective is to deepen our understanding of the underlying mechanisms and to use this information for the controlling and designing cellular processes. For this, we use the latest computational technologies with a wide range of methods including molecular dynamics, structural bioinformatics, stochastic simulation algorithms and mathematical analysis of dynamic systems.
Group members
Publications
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Differential equilibration in cis- and trans-ceramide monolayers: A molecular dynamics study
J Chem Phys. 2026 May 14;164(18):185102. DOI: 10.1063/5.0322180 -
Scaling laws and paradoxical metastable states in nanofilament entropic separation
J Chem Phys. 2026 Mar 28;164(12):124905. PMID: 41891819. doi: 10.1063/5.0314333. -
Actionable Forecasting as a Determinant of Biological Adaptation
Adv Sci (Weinh). 2025 Apr;12(16):e2413153. doi: 10.1002/advs.202413153. Epub 2025 Feb 27. PMID: 40017047; PMCID: PMC12021117. -
Chaperone-Driven Entropic Separation of Amyloid Nanofilament Bundles
Phys. Rev. X. 2025; 15;011041 -
Quasi-average predictions and regression to the trend: An application to the M6 financial forecasting competition
International Journal of Forecasting, 2025. doi: 10.1016/j.ijforecast.2024.12.006 -
The unreasonable effectiveness of equilibrium gene regulation through the cell cycle
Cell Syst. 2024 Jul 17;15(7):639-648.e2. doi: 10.1016/j.cels.2024.06.002. Epub 2024 Jul 8. PMID: 38981487. -
Dynamics-informed deconvolutional neural networks for super-resolution identification of regime changes in epidemiological time series
SCIENCE ADVANCES. 14 Jul 2023. Vol 9, Issue 28. DOI: 10.1126/sciadv.adf067 -
Multi-landmark alignment of genomic signals reveals conserved expression patterns across transcription start sites
Sci Rep. 2023 Jul 5;13(1):10835. doi: 10.1038/s41598-023-37140-x. -
Robustness of DNA looping across multiple cell divisions in individual bacteria
National Academy of Sciences (2022), 119 (33) e2200061119; doi: 10.1073/pnas.2200061119 -
Ascertaining the initiation of epidemic resurgences: an application to the COVID-19 second surges in Europe and the Northeast United States.
R. Soc. open sci., 8: 210773, (2021) doi:1 0.1098/rsos.210773 -
Reliably quantifying the evolving worldwide dynamic state of the COVID-19 outbreak from death records, clinical parametrization, and demographic data.
Sci Rep 11, 19952 (2021) doi:10.1038/s41598-021-99273-1 -
Extraction and Refolding Determinants of Chaperone-Driven Aggregated Protein Reactivation
J Mol Biol. 432(10):3239-3250. (2020) doi: 10.1016/j.jmb.2020.03.002. (2020) -
Regulation of Human Hsc70 ATPase and Chaperone Activities by Apg2: Role of the Acidic Subdomain
J Mol Biol ;431(2):444-461. doi: 10.1016/j.jmb.2018.11.026 (2019) -
Clearly Detectable, Kinetically Restricted Solid?Solid Phase Transition in cis-Ceramide Monolayers
Langmuir; 34(39):11749-11758. doi: 10.1021/acs.langmuir.8b02198. (2018) -
Determinants of population responses to environmental fluctuations
Sci Rep. 2018;8(1):887. doi: 10.1038/s41598-017-18976-6 (2018)