Anton Feenstra

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Jaap HeringaProfessor of Bioinformatics, Vrije Universiteit AmsterdamVerified email at vu.nl
Sanne AbelnProfessor of AI Technology for Life, Utrecht UniversityVerified email at uu.nl
David van der SpoelProfessor of Biology, Uppsala UniversityVerified email at xray.bmc.uu.se
Berk HessKTH Royal Institute of Technology, Stockholm, Sweden; Science for Life Laboratory, Stockholm, SwedenVerified email at scilifelab.se
Erik LindahlProfessor of Biophysics, Stockholm University & KTH, Science for Life LaboratoryVerified email at dbb.su.se
NPE VermeulenHoogleraar VUVerified email at vu.nl
Pieter MeulenhoffTNOVerified email at tno.nl
Walter PirovanoResearch project manager, VU UniversityVerified email at vu.nl
Nicola BonzanniVU University AmsterdamVerified email at vu.nl
D. Peter TielemanCanada Research Chair in Molecular Simulation, University of CalgaryVerified email at ucalgary.ca
Qingzhen Hou3BIO-BioInfo - BioModeling, BioInformatics & BioProcesses, Université Libre de BruxellesVerified email at ulb.ac.be
Chris de GraafSosei HeptaresVerified email at heptares.com
Wan FokkinkProfessor of Computer Science, Vrije Universiteit AmsterdamVerified email at vu.nl
Elzbieta KrepskaVU University AmsterdamVerified email at vu.nl
Annika JacobsenBioSemantics Group, Human Genetics, Leiden University Medical CenterVerified email at lumc.nl
Mark AbrahamVoxo ABVerified email at kth.se
Alan E. MarkProfessor of Biophysical Chemistry, University of QueenslandVerified email at uq.edu.au
Henri BalVU University AmsterdamVerified email at cs.vu.nl
Thilo KielmannAssociate Professor of Computer Science, Vrije Universiteit, AmsterdamVerified email at vu.nl
Elena MarchioriRadboud UniversityVerified email at cs.ru.nl

Anton Feenstra

Assistant professor of Bioinformatics, IBIVU Centre for Integrative Bioinformatics, VU University

Verified email at vu.nl - Homepage

Bioinformatics Protein-protein interactions Modelling signalling and regulation in biological cells Petri net modelling


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
Improving efficiency of large timescale molecular dynamics simulations of hydrogen-rich systems KA Feenstra, B Hess, HJC Berendsen J Comput Chem 20, 786-798, 1999	918	1999
Gromacs User Manual version 4.0, 2005 D Van Der Spoel, E Lindahl, B Hess, AR Van Buuren, E Apol, ... URL http://www. gromacs. org/Documentation/Manual, 2009	738*	2009
GROMACS user manual version 5.1 MJ Abraham, D Van Der Spoel, E Lindahl, B Hess	551*	2014
Cytochrome P450 in silico: an integrative modeling approach C De Graaf, NPE Vermeulen, KA Feenstra Journal of medicinal chemistry 48 (8), 2725-2755, 2005	272	2005
Dynamic conformations of flavin adenine dinucleotide: simulated molecular dynamics of the flavin cofactor related to the time-resolved fluorescence characteristics PAW Van den Berg, KA Feenstra, AE Mark, HJC Berendsen, AJWG Visser The Journal of Physical Chemistry B 106 (34), 8858-8869, 2002	165	2002
GROMACS user manual version 3.1. 1 D Van der Spoel, AR Van Buuren, E Apol, PJ Meulenhoff, DP Tieleman, ... Nijenborgh 4, 9747, 2002	150	2002
PRALINE™: a strategy for improved multiple alignment of transmembrane proteins W Pirovano, KA Feenstra, J Heringa Bioinformatics 24 (4), 492-497, 2008	133	2008
Interaction of 14-3-3 proteins with the estrogen receptor alpha F domain provides a drug target interface IJ De Vries-van Leeuwen, D da Costa Pereira, KD Flach, SR Piersma, ... Proceedings of the National Academy of Sciences 110 (22), 8894-8899, 2013	122	2013
Multi-RELIEF: a method to recognize specificity determining residues from multiple sequence alignments using a Machine-Learning approach for feature weighting K Ye, K Anton Feenstra, J Heringa, AP IJzerman, E Marchiori Bioinformatics 24 (1), 18-25, 2008	91	2008
Hard-wired heterogeneity in blood stem cells revealed using a dynamic regulatory network model N Bonzanni, A Garg, KA Feenstra, J Schütte, S Kinston, ... Bioinformatics 29 (13), i80-i88, 2013	89	2013
Sequence comparison by sequence harmony identifies subtype-specific functional sites W Pirovano, KA Feenstra, J Heringa Nucleic acids research 34 (22), 6540-6548, 2006	89	2006
Metabolic Regio- and Stereoselectivity of Cytochrome P450 2D6 towards 3,4-Methylenedioxy-N-alkylamphetamines: in Silico Predictions and Experimental … PHJ Keizers, C de Graaf, FJJ de Kanter, C Oostenbrink, KA Feenstra, ... Journal of medicinal chemistry 48 (19), 6117-6127, 2005	74	2005
Altering the regioselectivity of cytochrome P450 CYP102A3 of Bacillus subtilis by using a new versatile assay system O Lentz, A Feenstra, T Habicher, B Hauer, RD Schmid, VB Urlacher ChemBioChem 7 (2), 345-350, 2006	73	2006
Multi-Harmony: detecting functional specificity from sequence alignment BW Brandt, KA Feenstra, J Heringa Nucleic acids research 38 (suppl_2), W35-W40, 2010	66	2010
Executing multicellular differentiation: quantitative predictive modelling of C.elegans vulval development N Bonzanni, E Krepska, KA Feenstra, W Fokkink, T Kielmann, H Bal, ... Bioinformatics 25 (16), 2049-2056, 2009	61	2009
Gromacs User Manual version 2.0. Nijenborgh 4, 9747 AG, Groningen, The Netherlands D van der Spoel, AR van Buuren, E Apol, PJ Meulenhoff, DP Tieleman, ... Internet: http://www. gromacs. org, 2001	59	2001
Seeing the trees through the forest: sequence-based homo-and heteromeric protein-protein interaction sites prediction using random forest Q Hou, PFG De Geest, WF Vranken, J Heringa, KA Feenstra Bioinformatics 33 (10), 1479-1487, 2017	57	2017
Multiple sequence alignment P Bawono, M Dijkstra, W Pirovano, A Feenstra, S Abeln, J Heringa Bioinformatics: volume I: data, sequence analysis, and evolution, 167-189, 2017	51	2017
Coarse-grained versus atomistic simulations: realistic interaction free energies for real proteins A May, R Pool, E van Dijk, J Bijlard, S Abeln, J Heringa, KA Feenstra Bioinformatics 30 (3), 326-334, 2014	51	2014
HIV-1 envelope glycoprotein signatures that correlate with the development of cross-reactive neutralizing activity TLGM Van den Kerkhof, KA Feenstra, Z Euler, MJ Van Gils, LWE Rijsdijk, ... Retrovirology 10 (1), 1-19, 2013	51	2013

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