Jesper Ferkinghoff-Borg

发表

Generative probabilistic models extend the scope of inferential structure determination.

Simon Olsson, Wouter Boomsma, Jes Frellsen, 2011, Journal of magnetic resonance.

Combining Experiments and Simulations Using the Maximum Entropy Principle

Kresten Lindorff-Larsen, Wouter Boomsma, Jesper Ferkinghoff-Borg, 2014, PLoS Comput. Biol..

Genome-Wide Prediction of SH2 Domain Targets Using Structural Information and the FoldX Algorithm

Ignacio E. Sánchez, François Stricher, Pedro Beltrão, 2008, PLoS Comput. Biol..

Computational Redesign of Thioredoxin Is Hypersensitive toward Minor Conformational Changes in the Backbone Template.

Kresten Lindorff-Larsen, Jesper Ferkinghoff-Borg, Thomas Hamelryck, 2016, Journal of molecular biology.

The FoldX web server: an online force field

François Stricher, Luis Serrano, Joost Schymkowitz, 2005, Nucleic Acids Res..

Subtle Monte Carlo Updates in Dense Molecular Systems.

Wouter Boomsma, Sandro Bottaro, Jesper Ferkinghoff-Borg, 2012, Journal of chemical theory and computation.

Bowhead: Bayesian modelling of cell velocity during concerted cell migration

Xavier Robin, Jesper Ferkinghoff-Borg, Rune Linding, 2018, PLoS Comput. Biol..

Robust Estimation of Diffusion-Optimized Ensembles for Enhanced Sampling.

Kresten Lindorff-Larsen, Jesper Ferkinghoff-Borg, Anders Irbäck, 2014, Journal of chemical theory and computation.

A generative, probabilistic model of local protein structure

Jesper Ferkinghoff-Borg, Thomas Hamelryck, Kanti V Mardia, 2008, Proceedings of the National Academy of Sciences.

Robust Estimation of Diffusion-Optimized Ensembles for Enhanced Sampling

Pengfei Tian, Wouter Boomsma, Jesper Ferkinghoff-Borg, 2014 .

Bayesian Generalised Ensemble Markov Chain Monte Carlo

Ole Winther, Zoubin Ghahramani, Jes Frellsen, 2016, AISTATS.

On the Physical Relevance and Statistical Interpretation of Knowledge-Based Potentials

Jesper Ferkinghoff-Borg, Thomas Hamelryck, Mikael Borg, 2012 .

A Probabilistic Model of RNA Conformational Space

Kanti V. Mardia, Jes Frellsen, Jesper Ferkinghoff-Borg, 2009, PLoS Comput. Biol..

Information theoretical quantification of cooperativity in signalling complexes

Tom Lenaerts, Jesper Ferkinghoff-Borg, Joost Schymkowitz, 2009, BMC Systems Biology.

SNPeffect: a database mapping molecular phenotypic effects of human non-synonymous coding SNPs

François Stricher, Luis Serrano, Jesper Ferkinghoff-Borg, 2004, Nucleic Acids Res..

Microbial Biofilm as a Smart Material

Jesper Ferkinghoff-Borg, Christian Garde, Martin Welch, 2015, Sensors.

PHAISTOS: A framework for Markov chain Monte Carlo simulation and inference of protein structure

Kresten Lindorff-Larsen, Pengfei Tian, Jan H. Jensen, 2013, J. Comput. Chem..

Combining the multicanonical ensemble with generative probabilistic models of local biomolecular structure

Jes Frellsen, Jesper Ferkinghoff-Borg, Thomas Hamelryck, 2013 .

Calculation of accurate small angle X-ray scattering curves from coarse-grained protein models

Jesper Ferkinghoff-Borg, Thomas Hamelryck, Christian Andreetta, 2010, BMC Bioinformatics.

Bayesian Methods in Structural Bioinformatics

Kanti V. Mardia, Jesper Ferkinghoff-Borg, Thomas Hamelryck, 2012 .

General Protocol for Constructing Molecular Models of Nanodiscs

Tsjerk A. Wassenaar, Jesper Ferkinghoff-Borg, Leonardo De Maria, 2021, J. Chem. Inf. Model..

Experimental parameterization of an energy function for the simulation of unfolded proteins.

Kresten Lindorff-Larsen, Jesper Ferkinghoff-Borg, K. Lindorff-Larsen, 2008, Biophysical journal.

Quorum sensing regulation in Aeromonas hydrophila.

Kim Sneppen, Jesper Ferkinghoff-Borg, Thomas Bjarnsholt, 2010, Journal of molecular biology.

Neural mechanism of activity spread in the cat motor cortex and its relation to the intrinsic connectivity

Jesper Ferkinghoff-Borg, Christian Ethier, Charles Capaday, 2011, The Journal of physiology.

Equilibrium simulations of proteins using molecular fragment replacement and NMR chemical shifts

Kresten Lindorff-Larsen, Michele Vendruscolo, Wouter Boomsma, 2014, Proceedings of the National Academy of Sciences.

Probabilistic Determination of Native State Ensembles of Proteins.

Kresten Lindorff-Larsen, Wouter Boomsma, Jesper Ferkinghoff-Borg, 2014, Journal of chemical theory and computation.

Kresten Lindorff-Larsen, Jesper Ferkinghoff-Borg, K. Lindorff-Larsen, 2009, PloS one.

Towards a General Probabilistic Model of Protein Structure: The Reference Ratio Method

Kanti V. Mardia, Jes Frellsen, Jesper Ferkinghoff-Borg, 2012 .

Dynamic Rearrangement of Cell States Detected by Systematic Screening of Sequential Anticancer Treatments.

Jesper Ferkinghoff-Borg, Thomas R Cox, Rune Linding, 2017, Cell reports.

Diffusion, fragmentation, and coagulation processes: analytical and numerical results.

Jesper Ferkinghoff-Borg, Joachim Mathiesen, Poul Olesen, 2005, Physical review. E, Statistical, nonlinear, and soft matter physics.

Recognizing and defining true Ras binding domains II: in silico prediction based on homology modelling and energy calculations.

Joost Schymkowitz, Frederic Rousseau, Jesper Ferkinghoff-Borg, 2005, Journal of molecular biology.