Tsjerk Wassenaar
Tsjerk Wassenaar
gastonderzoeker RuG
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Improved parameters for the martini coarse-grained protein force field
DH de Jong, G Singh, WFD Bennett, C Arnarez, TA Wassenaar, ...
Journal of chemical theory and computation 9 (1), 687-697, 2013
6952013
HADDOCK versus HADDOCK: new features and performance of HADDOCK2. 0 on the CAPRI targets
SJ De Vries, ADJ Van Dijk, M Krzeminski, M van Dijk, A Thureau, V Hsu, ...
Proteins: structure, function, and bioinformatics 69 (4), 726-733, 2007
5972007
Lipid organization of the plasma membrane
HI Ingˇlfsson, MN Melo, FJ Van Eerden, C Arnarez, CA Lopez, ...
Journal of the american chemical society 136 (41), 14554-14559, 2014
4812014
Computational Lipidomics with insane: A Versatile Tool for Generating Custom Membranes for Molecular Simulations
TA Wassenaar, HI Ingˇlfsson, RA Böckmann, DP Tieleman, SJ Marrink
Journal of chemical theory and computation 11 (5), 2144-2155, 2015
4182015
Going backward: a flexible geometric approach to reverse transformation from coarse grained to atomistic models
TA Wassenaar, K Pluhackova, RA Böckmann, SJ Marrink, DP Tieleman
Journal of chemical theory and computation 10 (2), 676-690, 2014
3362014
WeNMR: structural biology on the grid
TA Wassenaar, M Van Dijk, N Loureiro-Ferreira, G Van Der Schot, ...
Journal of Grid Computing 10 (4), 743-767, 2012
1602012
Mixing MARTINI: electrostatic coupling in hybrid atomistic–coarse-grained biomolecular simulations
TA Wassenaar, HI Ingólfsson, M Prie▀, SJ Marrink, LV Schäfer
The Journal of Physical Chemistry B 117 (13), 3516-3530, 2013
1262013
Characterization of thylakoid lipid membranes from cyanobacteria and higher plants by molecular dynamics simulations
FJ van Eerden, DH de Jong, AH de Vries, TA Wassenaar, SJ Marrink
Biochimica et Biophysica Acta (BBA)-Biomembranes 1848 (6), 1319-1330, 2015
922015
Lipid–protein interactions are unique fingerprints for membrane proteins
V Corradi, E Mendez-Villuendas, HI Ingólfsson, RX Gu, I Siuda, MN Melo, ...
ACS central science 4 (6), 709-717, 2018
752018
High-throughput simulations of dimer and trimer assembly of membrane proteins. The DAFT approach
TA Wassenaar, K Pluhackova, A Moussatova, D Sengupta, SJ Marrink, ...
Journal of chemical theory and computation 11 (5), 2278-2291, 2015
692015
Dynamic cholesterol-conditioned dimerization of the G protein coupled chemokine receptor type 4
K Pluhackova, S Gahbauer, F Kranz, TA Wassenaar, RA B÷ckmann
PLoS computational biology 12 (11), e1005169, 2016
532016
Activation of the bacterial thermosensor DesK involves a serine zipper dimerization motif that is modulated by bilayer thickness
LE Cybulski, J Ballering, A Moussatova, ME Inda, DB Vazquez, ...
Proceedings of the National Academy of Sciences 112 (20), 6353-6358, 2015
432015
Nucleobase-functionalized graphene nanoribbons for accurate high-speed DNA sequencing
E Paulechka, TA Wassenaar, K Kroenlein, A Kazakov, A Smolyanitsky
Nanoscale 8 (4), 1861-1867, 2016
392016
X-ray structure, thermodynamics, elastic properties and MD simulations of cardiolipin/dimyristoylphosphatidylcholine mixed membranes
AL Boscia, BW Treece, D Mohammadyani, J Klein-Seetharaman, ...
Chemistry and physics of lipids 178, 1-10, 2014
362014
The effect of box shape on the dynamic properties of proteins simulated under periodic boundary conditions
TA Wassenaar, AE Mark
Journal of computational chemistry 27 (3), 316-325, 2006
322006
A flexible, grid-enabled web portal for GROMACS molecular dynamics simulations
M van Dijk, TA Wassenaar, AMJJ Bonvin
Journal of Chemical theory and Computation 8 (10), 3463-3472, 2012
292012
A MoS2-Based Capacitive Displacement Sensor for DNA Sequencing
A Smolyanitsky, BI Yakobson, TA Wassenaar, E Paulechka, K Kroenlein
ACS nano 10 (9), 9009-9016, 2016
282016
How sensitive are nanosecond molecular dynamics simulations of proteins to changes in the force field?
A Villa, H Fan, T Wassenaar, AE Mark
The Journal of Physical Chemistry B 111 (21), 6015-6025, 2007
272007
Spontaneous adsorption of coiled-coil model peptides K and E to a mixed lipid bilayer
K Pluhackova, TA Wassenaar, S Kirsch, RA Böckmann
The Journal of Physical Chemistry B 119 (12), 4396-4408, 2015
242015
The eNMR platform for structural biology
AMJJ Bonvin, A Rosato, TA Wassenaar
Journal of structural and functional genomics 11 (1), 1-8, 2010
242010
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Artikelen 1–20