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List of works by Anton Feenstra

A community proposal to integrate structural bioinformatics activities in ELIXIR (3D-Bioinfo Community)

scientific article published on 22 April 2020

A comparison of methods for calculating NMR cross-relaxation rates (NOESY and ROESY intensities) in small peptides.

scientific article

Altering the regioselectivity of cytochrome P450 CYP102A3 of Bacillus subtilis by using a new versatile assay system

scientific article published in February 2006

Aurora kinase A (AURKA) interaction with Wnt and Ras-MAPK signalling pathways in colorectal cancer.

scientific article

BioASF: a framework for automatically generating executable pathway models specified in BioPAX.

scientific article

CLUB-MARTINI: Selecting Favourable Interactions amongst Available Candidates, a Coarse-Grained Simulation Approach to Scoring Docking Decoys.

scientific article

Coarse-grained versus atomistic simulations: realistic interaction free energies for real proteins

scientific article

Combining substrate dynamics, binding statistics, and energy barriers to rationalize regioselective hydroxylation of octane and lauric acid by CYP102A1 and mutants

scientific article

Construction and Experimental Validation of a Petri Net Model of Wnt/β-Catenin Signaling.

scientific article

Cytochrome p450 in silico: an integrative modeling approach.

scientific article

Deep sequencing identifies hepatitis B virus core protein signatures in chronic hepatitis B patients

scientific article published on 16 August 2018

Enabling grand-canonical Monte Carlo: extending the flexibility of GROMACS through the GromPy python interface module.

scientific article

Explaining disease using big data: How valid is your pathway?

scientific article (publication date: July 2015)

HIV-1 envelope glycoprotein signatures that correlate with the development of cross-reactive neutralizing activity.

scientific article published on 23 September 2013

HIV-1 replication fitness of HLA-B*57/58:01 CTL escape variants is restored by the accumulation of compensatory mutations in gag

scientific article

In vitro evolution of styrene monooxygenase from Pseudomonas putida CA-3 for improved epoxide synthesis.

scientific article published in July 2009

Metabolic regio- and stereoselectivity of cytochrome P450 2D6 towards 3,4-methylenedioxy-N-alkylamphetamines: in silico predictions and experimental validation.

scientific article

Motif-Aware PRALINE: Improving the alignment of motif regions

scientific article published on 01 November 2018

Multi-Harmony: detecting functional specificity from sequence alignment.

scientific article published on 4 June 2010

Multiple Sequence Alignment

scientific article published in January 2017

On defining the dynamics of hydrophobic patches on protein surfaces

scientific article published on 01 July 2008

PRALINETM: a strategy for improved multiple alignment of transmembrane proteins

scientific article published on 02 January 2008

Seeing the trees through the forest: sequence-based homo- and heteromeric protein-protein interaction sites prediction using random forest.

scientific article published on 10 January 2017

Sequence harmony: detecting functional specificity from alignments.

scientific article

Sequence specificity between interacting and non-interacting homologs identifies interface residues--a homodimer and monomer use case

scientific article

Ten quick tips for sequence-based prediction of protein properties using machine learning

scientific article published in December 2022

The ability of transcription factors to differentially regulate gene expression is a crucial component of the mechanism underlying inversion, a frequently observed genetic interaction pattern.

scientific article published on 13 May 2019

The meaning of alignment: lessons from structural diversity.

scientific article

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