- Phone+47 55 58 60 99
- Visitor AddressKalfarveien 31
- Postal AddressPostboks 78045020 Bergen
I studied at Physics Faculty, at University of Warsaw, Poland, where I also did my PhD in theoretical biophysics under the supervision of Assoc. Prof. Joanna Trylska. During my PhD studies, I was investigating resistance mechanisms of bacteria against aminoglycoside antibiotics. I used tools of theoretical biophysics, such as molecular dynamics (MD) simulations, Poisson-Boltzmann electrostatic model, molecular mechanics (MM) generalized Born (GB) surface area (SA) free energy estimation and many visualization techniques. I developed an algorithm for analysis of internal motions of biomolecules based on large conformational datasets e.g., from MD simulations. The algorithm is implemented in Java standalone program, Geometrically Stable Substructures (GeoStaS) - check it out on bitbucket!
Next, I spent a bit less than two years at Heidelberg Institute for Theoretical Studies (the MCM group of Prof. Rebecca Wade) where I was studying interactions of biomolecules within crowded and confined environment, which mimics the cellular interior. I was using Brownian Dynamics (BD) simulations and was developing a model for biomolecules interacting with solid surfaces. My programming skills were useful in development of the new version of SDA (Simulation of Diffusional Association). Moreover, I was studying association and dissociation kinetics of drug--protein complexes, also using BD simulations.
Currently, as a post-doc at the University of Bergen, I am analyzing genomic data with the use of statistical methods, and looking at possible risks for certain phenotypes associated with specific allele variations. I am involved in the development of the Haplin software, intented for this kind of analysis. The project is a joint collaboration between Prof. Rolv Terje Lie at IGS and Prof. Inge Jonassen at CBU, which aims at making the software more efficient and available to a larger scientific community, as well as including bioinformatics data into analysis.
- 2019. Haplin power analysis: a software module for power and sample size calculations in genetic association analyses of family triads and unrelated controls. BMC Bioinformatics. 20. 11 pages. doi: 10.1186/s12859-019-2727-3
- 2018. A genome-wide search for gene-environment effects in isolated cleft lip with or without cleft palate triads points to an interaction between maternal periconceptional vitamin use and variants in ESRRG. Frontiers in Genetics. 9. 16 pages. doi: 10.3389/fgene.2018.00060
- 2018. Analysis of parent-of-origin effects on the X chromosome in asian and european orofacial cleft triads identifies associations with DMD, FGF13, EGFL6, and additional loci at Xp22.2. Frontiers in Genetics. 9. 17 pages. doi: 10.3389/fgene.2018.00025
- 2017. Parent-of-origin-environment interactions in case-parent triads with or without independent controls. Annals of Human Genetics. 82: 60-73. doi: 10.1111/ahg.12224
- 2017. Genome-wide analysis of parent-of-origin interaction effects with environmental exposure (PoOxE): An application to European and Asian cleft palate trios. PLoS ONE. 12. 19 pages. doi: 10.1371/journal.pone.0184358
- 2017. A new approach to chromosome-wide analysis of X-linked markers identifies new associations in Asian and European case-parent triads of orofacial clefts. PLoS ONE. 12. 23 pages. doi: 10.1371/journal.pone.0183772
- 2015. SDA 7: A modular and parallel implementation of the simulation of diffusional association software. Journal of Computational Chemistry. 36: 1631-1645. doi: 10.1002/jcc.23971
- 2015. When the Label Matters: Adsorption of Labeled and Unlabeled Proteins on Charged Surfaces. Nano letters (Print). 15: 7508-7513. doi: 10.1021/acs.nanolett.5b03168