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Tsjerk Wassenaar
Tsjerk Wassenaar
gastonderzoeker RuG
Verified email at rug.nl
Title
Cited by
Cited by
Year
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
13152013
Computational Lipidomics with insane: A Versatile Tool for Generating Custom Membranes for Molecular Simulations
TA Wassenaar, HI Ingólfsson, RA Bockmann, DP Tieleman, SJ Marrink
Journal of chemical theory and computation 11 (5), 2144-2155, 2015
9342015
Lipid organization of the plasma membrane
HI Ingólfsson, MN Melo, FJ Van Eerden, C Arnarez, CA Lopez, ...
Journal of the american chemical society 136 (41), 14554-14559, 2014
8532014
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
6742007
Going backward: a flexible geometric approach to reverse transformation from coarse grained to atomistic models
TA Wassenaar, K Pluhackova, RA Bockmann, SJ Marrink, DP Tieleman
Journal of chemical theory and computation 10 (2), 676-690, 2014
6332014
Martini 3: a general purpose force field for coarse-grained molecular dynamics
PCT Souza, R Alessandri, J Barnoud, S Thallmair, I Faustino, ...
Nature methods 18 (4), 382-388, 2021
6112021
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
2832018
WeNMR: structural biology on the grid
TA Wassenaar, M Van Dijk, N Loureiro-Ferreira, G Van Der Schot, ...
Journal of Grid Computing 10, 743-767, 2012
2042012
Mixing MARTINI: electrostatic coupling in hybrid atomistic–coarse-grained biomolecular simulations
TA Wassenaar, HI Ingólfsson, M Prieß, SJ Marrink, LV Schäfer
The Journal of Physical Chemistry B 117 (13), 3516-3530, 2013
1742013
LION/web: a web-based ontology enrichment tool for lipidomic data analysis
MR Molenaar, A Jeucken, TA Wassenaar, CHA van de Lest, JF Brouwers, ...
Gigascience 8 (6), giz061, 2019
1502019
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
1442015
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
1132015
Backmapping triangulated surfaces to coarse-grained membrane models
W Pezeshkian, M König, TA Wassenaar, SJ Marrink
Nature communications 11 (1), 2296, 2020
972020
Dynamic cholesterol-conditioned dimerization of the G protein coupled chemokine receptor type 4
K Pluhackova, S Gahbauer, F Kranz, TA Wassenaar, RA Böckmann
PLoS computational biology 12 (11), e1005169, 2016
842016
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
632015
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
612016
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
522016
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
512014
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
402006
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
392012
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