Patrice Koehl

Publication Activity (10 Years)

Years Active: 2000-2024
Publications (10 Years): 10

Top Topics

Graduate Students

Protein Fold Recognition

Top Venues

J. Comput. Chem.

J. Chem. Inf. Model.

Publications

Patrice Koehl, Henri Orland
A General Statistical Physics Framework for Assignment Problems. Algorithms 17 (5) (2024)
Patrice Koehl, Marc Delarue, Henri Orland
Computing the Gromov-Wasserstein Distance between Two Surface Meshes Using Optimal Transport. Algorithms 16 (3) (2023)
Patrice Koehl, Henri Orland
A Physicist's View on Partial 3D Shape Matching. Algorithms 16 (7) (2023)
Patrice Koehl, Arseniy V. Akopyan, Herbert Edelsbrunner
Computing the Volume, Surface Area, Mean, and Gaussian Curvatures of Molecules and Their Derivatives. J. Chem. Inf. Model. 63 (3) (2023)
Jérôme Houdayer, Patrice Koehl
Stable Evaluation of 3D Zernike Moments for Surface Meshes. Algorithms 15 (11) (2022)
Patrice Koehl, Henri Orland, Marc Delarue
Parameterizing elastic network models to capture the dynamics of proteins. J. Comput. Chem. 42 (23) (2021)
Timothy E. Saunders, Cynthia Y. He, Patrice Koehl, Lee-Ling Sharon Ong, Peter T. C. So
Eleven quick tips for running an interdisciplinary short course for new graduate students. PLoS Comput. Biol. 14 (3) (2018)
Saghi Nojoomi, Patrice Koehl
A weighted string kernel for protein fold recognition. BMC Bioinform. 18 (1) (2017)
Saghi Nojoomi, Patrice Koehl
String kernels for protein sequence comparisons: improved fold recognition. BMC Bioinform. 18 (1) (2017)
Joel Hass, Patrice Koehl
Comparing shapes of genus-zero surfaces. J. Appl. Comput. Topol. 1 (1) (2017)
Patrice Koehl, Joel Hass
Automatic Alignment of Genus-Zero Surfaces. IEEE Trans. Pattern Anal. Mach. Intell. 36 (3) (2014)
Fei Xia, Dudu Tong, Lifeng Yang, Dayong Wang, Steven C. H. Hoi, Patrice Koehl, Lanyuan Lu
Identifying essential pairwise interactions in elastic network model using the alpha shape theory. J. Comput. Chem. 35 (15) (2014)
Paul Mach, Patrice Koehl
An analytical method for computing atomic contact areas in biomolecules. J. Comput. Chem. 34 (2) (2013)
Alex Tsui, Devin Fenton, Phong Vuong, Joel Hass, Patrice Koehl, Nina Amenta, David Coeurjolly, Charles DeCarli, Owen T. Carmichael
Globally Optimal Cortical Surface Matching with Exact Landmark Correspondence. IPMI (2013)
Patrice Koehl
Fast Recursive Computation of 3D Geometric Moments from Surface Meshes. IEEE Trans. Pattern Anal. Mach. Intell. 34 (11) (2012)
Eric di Luccio, Patrice Koehl
The H-factor as a novel quality metric for homology modeling. J. Clin. Bioinform. 2 (2012)
Xinwei Shi, Patrice Koehl
Adaptive skin meshes coarsening for biomolecular simulation. Comput. Aided Geom. Des. 28 (5) (2011)
Paul Mach, Patrice Koehl
Geometric measures of large biomolecules: Surface, volume, and pockets. J. Comput. Chem. 32 (14) (2011)
Eric di Luccio, Patrice Koehl
A quality metric for homology modeling: the H-factor. BMC Bioinform. 12 (2011)
Frédéric Poitevin, Henri Orland, Sebastian Doniach, Patrice Koehl, Marc Delarue
AquaSAXS: a web server for computation and fitting of SAXS profiles with non-uniformally hydrated atomic models. Nucleic Acids Res. 39 (Web-Server-Issue) (2011)
Patricia Francis-Lyon, Shengyin Gu, Joel Hass, Nina Amenta, Patrice Koehl
Sampling the conformation of protein surface residues for flexible protein docking. BMC Bioinform. 11 (2010)
Xinwei Shi, Patrice Koehl
Adaptive surface meshes coarsening with guaranteed quality and topology. CGI (2009)
Joel Franklin, Patrice Koehl, Sebastian Doniach, Marc Delarue
MinActionPath: maximum likelihood trajectory for large-scale structural transitions in a coarse-grained locally harmonic energy landscape. Nucleic Acids Res. 35 (Web-Server-Issue) (2007)
Shengyin Gu, Olivier Poch, Bernd Hamann, Patrice Koehl
A Geometric Representation of Protein Sequences. BIBM (2007)
Erik Lindahl, Cyril Azuara, Patrice Koehl, Marc Delarue
NOMAD-Ref: visualization, deformation and refinement of macromolecular structures based on all-atom normal mode analysis. Nucleic Acids Res. 34 (Web-Server-Issue) (2006)
Cyril Azuara, Erik Lindahl, Patrice Koehl, Henri Orland, Marc Delarue
PDB_Hydro: incorporating dipolar solvents with variable density in the Poisson-Boltzmann treatment of macromolecule electrostatics. Nucleic Acids Res. 34 (Web-Server-Issue) (2006)
Afra Zomorodian, Leonidas J. Guibas, Patrice Koehl
Geometric filtering of pairwise atomic interactions applied to the design of efficient statistical potentials. Comput. Aided Geom. Des. 23 (6) (2006)
Rachel Kolodny, Leonidas J. Guibas, Michael Levitt, Patrice Koehl
Inverse Kinematics in Biology: The Protein Loop Closure Problem. Int. J. Robotics Res. 24 (2-3) (2005)
Robert L. Bryant, Herbert Edelsbrunner, Patrice Koehl, Michael Levitt
The Area Derivative of a Space-Filling Diagram. Discret. Comput. Geom. 32 (3) (2004)
John-Marc Chandonia, Gary Chung Hon, Nigel S. Walker, Loredana Lo Conte, Patrice Koehl, Michael Levitt, Steven E. Brenner
The ASTRAL Compendium in 2004. Nucleic Acids Res. 32 (Database-Issue) (2004)
John-Marc Chandonia, Nigel S. Walker, Loredana Lo Conte, Patrice Koehl, Michael Levitt, Steven E. Brenner
ASTRAL compendium enhancements. Nucleic Acids Res. 30 (1) (2002)
Pankaj K. Agarwal, Leonidas J. Guibas, Herbert Edelsbrunner, Jeff Erickson, Michael Isard, Sariel Har-Peled, John Hershberger, Christian S. Jensen, Lydia E. Kavraki, Patrice Koehl, Ming C. Lin, Dinesh Manocha, Dimitris N. Metaxas, Brian Mirtich, David M. Mount, S. Muthukrishnan, Dinesh K. Pai, Elisha Sacks, Jack Snoeyink, Subhash Suri, Ouri Wolfson
Algorithmic issues in modeling motion. ACM Comput. Surv. 34 (4) (2002)
Steven E. Brenner, Patrice Koehl, Michael Levitt
The ASTRAL compendium for protein structure and sequence analysis. Nucleic Acids Res. 28 (1) (2000)