Patrice Koehl

Orcid: 0000-0002-0908-068X

According to our database1, Patrice Koehl authored at least 34 papers between 2000 and 2024.

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Bibliography

2024
A General Statistical Physics Framework for Assignment Problems.
Algorithms, May, 2024

2023
A Physicist's View on Partial 3D Shape Matching.
Algorithms, July, 2023

Computing the Gromov-Wasserstein Distance between Two Surface Meshes Using Optimal Transport.
Algorithms, March, 2023

Computing the Volume, Surface Area, Mean, and Gaussian Curvatures of Molecules and Their Derivatives.
J. Chem. Inf. Model., February, 2023

2022
Stable Evaluation of 3D Zernike Moments for Surface Meshes.
Algorithms, 2022

2021
Parameterizing elastic network models to capture the dynamics of proteins.
J. Comput. Chem., 2021

2018
Eleven quick tips for running an interdisciplinary short course for new graduate students.
PLoS Comput. Biol., 2018

2017
Comparing shapes of genus-zero surfaces.
J. Appl. Comput. Topol., 2017

A weighted string kernel for protein fold recognition.
BMC Bioinform., 2017

String kernels for protein sequence comparisons: improved fold recognition.
BMC Bioinform., 2017

2014
Automatic Alignment of Genus-Zero Surfaces.
IEEE Trans. Pattern Anal. Mach. Intell., 2014

Identifying essential pairwise interactions in elastic network model using the alpha shape theory.
J. Comput. Chem., 2014

2013
An analytical method for computing atomic contact areas in biomolecules.
J. Comput. Chem., 2013

Globally Optimal Cortical Surface Matching with Exact Landmark Correspondence.
Proceedings of the Information Processing in Medical Imaging, 2013

2012
Fast Recursive Computation of 3D Geometric Moments from Surface Meshes.
IEEE Trans. Pattern Anal. Mach. Intell., 2012

The H-factor as a novel quality metric for homology modeling.
J. Clin. Bioinform., 2012

2011
AquaSAXS: a web server for computation and fitting of SAXS profiles with non-uniformally hydrated atomic models.
Nucleic Acids Res., 2011

Geometric measures of large biomolecules: Surface, volume, and pockets.
J. Comput. Chem., 2011

Adaptive skin meshes coarsening for biomolecular simulation.
Comput. Aided Geom. Des., 2011

A quality metric for homology modeling: the H-factor.
BMC Bioinform., 2011

2010
Sampling the conformation of protein surface residues for flexible protein docking.
BMC Bioinform., 2010

2009
Adaptive surface meshes coarsening with guaranteed quality and topology.
Proceedings of the 2009 Computer Graphics International Conference, 2009

2008
Visual Analysis of Biomolecular Surfaces.
Proceedings of the Visualization in Medicine and Life Sciences., 2008

2007
MinActionPath: maximum likelihood trajectory for large-scale structural transitions in a coarse-grained locally harmonic energy landscape.
Nucleic Acids Res., 2007

A Geometric Representation of Protein Sequences.
Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2007

2006
NOMAD-Ref: visualization, deformation and refinement of macromolecular structures based on all-atom normal mode analysis.
Nucleic Acids Res., 2006

PDB_Hydro: incorporating dipolar solvents with variable density in the Poisson-Boltzmann treatment of macromolecule electrostatics.
Nucleic Acids Res., 2006

Geometric filtering of pairwise atomic interactions applied to the design of efficient statistical potentials.
Comput. Aided Geom. Des., 2006

2005
Inverse Kinematics in Biology: The Protein Loop Closure Problem.
Int. J. Robotics Res., 2005

2004
The ASTRAL Compendium in 2004.
Nucleic Acids Res., 2004

The Area Derivative of a Space-Filling Diagram.
Discret. Comput. Geom., 2004

2002
ASTRAL compendium enhancements.
Nucleic Acids Res., 2002

Algorithmic issues in modeling motion.
ACM Comput. Surv., 2002

2000
The ASTRAL compendium for protein structure and sequence analysis.
Nucleic Acids Res., 2000


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