List of works - Jesper Ferkinghoff-Borg

A generative, probabilistic model of local protein structure

scientific article

A probabilistic model of RNA conformational space ⬇️

scientific article

An efficient null model for conformational fluctuations in proteins

scientific article published on 10 May 2012

Bowhead: Bayesian modelling of cell velocity during concerted cell migration.

scientific article published on 8 January 2018

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

scientific article

Combining experiments and simulations using the maximum entropy principle

scientific article

Compact phases of polymers with hydrogen bonding

scientific article published on 26 February 2003

Competition between diffusion and fragmentation: an important evolutionary process of nature.

scientific article published on 23 December 2003

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

scientific article

Diffusion, fragmentation and merging: Rate equations, distributions and critical points

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

scientific article published on 9 September 2005

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

scientific article published in September 2017

Dynamics of crystal formation in the Greenland NorthGRIP ice core

article

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

scientific article

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

scientific article published on 7 September 2007

Formulation of probabilistic models of protein structure in atomic detail using the reference ratio method.

scientific article

Generative probabilistic models extend the scope of inferential structure determination

scientific article

Genome-wide prediction of SH2 domain targets using structural information and the FoldX algorithm.

scientific article

Information theoretical quantification of cooperativity in signalling complexes

scientific article

Kinetic model for signal binding to the Quorum sensing regulator LasR.

scientific article published on 27 June 2013

Kinome-wide decoding of network-attacking mutations rewiring cancer signaling

scientific article

Microbial biofilm as a smart material

scientific article

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

scientific article

Novel optical and statistical methods reveal colloid–wall interactions inconsistent with DLVO and Lifshitz theories

scientific article published on 01 July 2005

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

scientific article

Potentials of mean force for protein structure prediction vindicated, formalized and generalized

scientific article

Prediction of water and metal binding sites and their affinities by using the Fold-X force field

scientific article

Probabilistic Determination of Native State Ensembles of Proteins

scientific article published on 30 June 2014

Proteins, physics and probability kinematics: a Bayesian formulation of the protein folding problem

Quantifying information transfer by protein domains: analysis of the Fyn SH2 domain structure

scientific article

Quorum sensing regulation in Aeromonas hydrophila

scientific article published on 11 January 2010

Recognizing and Defining True Ras Binding Domains II: In Silico Prediction Based on Homology Modelling and Energy Calculations

article

Robust Estimation of Diffusion-Optimized Ensembles for Enhanced Sampling

scientific article published on 28 January 2014

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

scientific article

Similarity measures for protein ensembles

scientific article published on 15 January 2009

Size of quorum sensing communities

scientific article published in January 2014

Stop-and-go kinetics in amyloid fibrillation

Subtle Monte Carlo Updates in Dense Molecular Systems

scientific article published on 18 January 2012

The FoldX web server: an online force field

scientific article

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

article

List of works by Jesper Ferkinghoff-Borg

A generative, probabilistic model of local protein structure

A probabilistic model of RNA conformational space ⬇️

An efficient null model for conformational fluctuations in proteins

Bowhead: Bayesian modelling of cell velocity during concerted cell migration.

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

Combining experiments and simulations using the maximum entropy principle

Compact phases of polymers with hydrogen bonding

Competition between diffusion and fragmentation: an important evolutionary process of nature.

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

Diffusion, fragmentation and merging: Rate equations, distributions and critical points

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

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

Dynamics of crystal formation in the Greenland NorthGRIP ice core

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

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

Formulation of probabilistic models of protein structure in atomic detail using the reference ratio method.

Generative probabilistic models extend the scope of inferential structure determination

Genome-wide prediction of SH2 domain targets using structural information and the FoldX algorithm.

Information theoretical quantification of cooperativity in signalling complexes

Kinetic model for signal binding to the Quorum sensing regulator LasR.

Kinome-wide decoding of network-attacking mutations rewiring cancer signaling

Microbial biofilm as a smart material

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

Novel optical and statistical methods reveal colloid–wall interactions inconsistent with DLVO and Lifshitz theories

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

Potentials of mean force for protein structure prediction vindicated, formalized and generalized

Prediction of water and metal binding sites and their affinities by using the Fold-X force field

Probabilistic Determination of Native State Ensembles of Proteins

Proteins, physics and probability kinematics: a Bayesian formulation of the protein folding problem

Quantifying information transfer by protein domains: analysis of the Fyn SH2 domain structure

Quorum sensing regulation in Aeromonas hydrophila

Recognizing and Defining True Ras Binding Domains II: In Silico Prediction Based on Homology Modelling and Energy Calculations

Robust Estimation of Diffusion-Optimized Ensembles for Enhanced Sampling

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

Similarity measures for protein ensembles

Size of quorum sensing communities

Stop-and-go kinetics in amyloid fibrillation

Subtle Monte Carlo Updates in Dense Molecular Systems

The FoldX web server: an online force field

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