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Personal profile

Quote

Molecular simulations can act as a digital microscope. They allow us to observe how simple interactions between atoms and molecules give rise to intricate dynamics of molecular systems.

Research profile

Bart Markvoort is assistant professor in the Computational Biology group of the TU/e department of Biomedical Engineering. His research focuses on molecular simulations of self-assembly and self-organization processes in biologically relevant systems, with focus on both method development and application. His current research projects include molecular dynamics simulations of phospholipid membranes, proteins and DNA, as well as the modeling of supramolecular (co)polymerizations and nanoparticles using Monte Carlo techniques. He is also active in the fields of synthetic biology, DNA nanotechnology, bioinformatics, and multi-scale modeling.

Academic background

Bart Markvoort studied Applied Physics at Eindhoven University of Technology (TU/e, The Netherlands), where he obtained his Master's degree in the Theoretical Physics group on the subject of small angle x-ray scattering on asphaltenes. He then started PhD research in the Parallel Systems group of the TU/e department of Mathematics and Computer Science on the application of wavelets in parallelized density functional theory calculations. In 2006, he obtained his PhD for his thesis 'Towards Hybrid Molecular Simulations' under the supervision of professors Peter Hilbers and Thijs Michels. He then was appointed in his current position as assistant professor in the Computational Biology group of the TU/e, heading the molecular simulations subgroup. As of 2010 he is also a member of the Institute for Complex Molecular Systems at TU/e.

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Research Output 1996 2019

A DNA-based synthetic apoptosome

Rosier, B., Markvoort, B., Gumi Audenis, B., Roodhuizen, J., Brunsveld, L. & de Greef, T. F. A., 2019, (Accepted/In press) In : Nature Catalysis.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Apoptosomes
Caspase 9
DNA
Proteins
Enzymes

Counterion-dependent mechanisms of DNA origami nanostructure stabilization revealed by atomistic molecular simulation

Roodhuizen, J., Hendrikx, P. J. T. M., Hilbers, P. A. J., de Greef, T. & Markvoort, B., 10 Sep 2019, In : ACS Nano. 13, p. 10798-10809

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
helices
Nanostructures
DNA
deoxyribonucleic acid
Stabilization
Open Access
File
Copolymerization
Benzene
Monomers
Copolymers
Homopolymerization
1 Citation (Scopus)

Equilibrium model for supramolecular copolymerizations

ten Eikelder, H., Adelizzi, B., Palmans, A. & Markvoort, B., 19 Jun 2019, In : Journal of Physical Chemistry B. 123, 30, p. 6627-6642

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Copolymerization
Copolymers
Monomers
Free energy
Polymers

Multivalency in a dendritic host-guest system

Smeijers, A. F., Pieterse, K., Hilbers, P. A. J. & Markvoort, A. J., 9 Apr 2019, In : Macromolecules. 52, 7, p. 2778-2788 11 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
File
Dendrimers
Supramolecular chemistry
Binding sites
Urea
Self assembly

Courses

DBL Gene expression

1/09/13 → …

Course

Molecular modeling

1/09/15 → …

Course

Programming and genomics

1/09/15 → …

Course

Project Computational biology

1/09/14 → …

Course

Press / Media

What Does Atp Mean In Biology

Bart Markvoort & Tom de Greef

26/04/17

1 item of media coverage

Press/Media: Expert Comment

Definition Of Cohesion In Biology

Bart Markvoort & Tom de Greef

26/04/17

1 item of media coverage

Press/Media: Expert Comment

Resolution Definition Biology

Bart Markvoort & Tom de Greef

26/04/17

1 item of media coverage

Press/Media: Expert Comment

Student theses

File

Cationic stabilization of DNA origami investigated through atomistic simulations

Author: Hendrikx, P., 29 Nov 2018

Supervisor: Roodhuizen, J. (Supervisor 1), Markvoort, B. (Supervisor 2), de Greef, T. (Supervisor 2) & Hilbers, P. (Supervisor 2)

Student thesis: Master

Cholesterol and bio-membranes influence on membrane dynamics and stability

Author: van den Heuvel, F., 28 Feb 2005

Supervisor: Hilbers, P. (Supervisor 1), Markvoort, A. (Supervisor 2), Pieterse, K. (Supervisor 2), van Steenhoven, A. (Supervisor 2) & Kuijpers, N. (Supervisor 2)

Student thesis: Master

Dynamic behaviour of the ß2-adrenergic receptor: approach and study using molecular dynamics

Author: Spijker, P., 31 Dec 2004

Supervisor: Hilbers, P. (Supervisor 1), Meijer, E. (Supervisor 2), van Santen, R. (Supervisor 2), Vaidehi, N. (External person) (External coach), Merkx, M. (Supervisor 2), Pieterse, K. (Supervisor 2) & Markvoort, A. (Supervisor 2)

Student thesis: Master

Mapping the homunculus in sensorimotor cortex using fMRI

Author: Bakker, C., 28 Sep 2017

Supervisor: Pluim, J. (Supervisor 1), Cheplygina, V. (Supervisor 2), Markvoort, A. (Supervisor 2) & Schellekens, W. (External person) (External coach)

Student thesis: Master