Thomas Hamelryck

According to our database, Thomas Hamelryck authored at least 23 papers between 2003 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

AI Implementation and Capability Development in Manufacturing: An Action Research Case.

Jon Eklof, Ulrika Snis, Thomas Hamelryck, Alexander Grima, Ola Rønning

Proceedings of the 57th Hawaii International Conference on System Sciences, 2024

2022

Ancestral protein sequence reconstruction using a tree-structured Ornstein-Uhlenbeck variational autoencoder.

Lys Sanz Moreta, Ola Rønning, Ahmad Salim Al-Sibahi, Jotun Hein, Douglas L. Theobald, Thomas Hamelryck

Proceedings of the Tenth International Conference on Learning Representations, 2022

2021

Time-efficient Bayesian Inference for a (Skewed) Von Mises Distribution on the Torus in a Deep Probabilistic Programming Language.

Ola Rønning, Christophe Ley, Kanti V. Mardia, Thomas Hamelryck

Proceedings of the IEEE International Conference on Multisensor Fusion and Integration for Intelligent Systems, 2021

Efficient Generative Modelling of Protein Structure Fragments using a Deep Markov Model.

Christian B. Thygesen, Christian Skjødt Steenmans, Ahmad Salim Al-Sibahi, Lys Sanz Moreta, Anders Bundgård Sørensen, Thomas Hamelryck

Proceedings of the 38th International Conference on Machine Learning, 2021

2020

Bayesian protein superposition using Hamiltonian Monte Carlo.

Lys Sanz Moreta, Ahmad Salim Al-Sibahi, Thomas Hamelryck

Proceedings of the 20th IEEE International Conference on Bioinformatics and Bioengineering, 2020

2019

Langevin diffusions on the torus: estimation and applications.

Eduardo García-Portugués, Michael Sørensen, Kanti V. Mardia, Thomas Hamelryck

Stat. Comput., 2019

A Probabilistic Programming Approach to Protein Structure Superposition.

Lys Sanz Moreta, Ahmad Salim Al-Sibahi, Douglas L. Theobald, William Bullock, Basile Nicolas Rommes, Andreas Manoukian, Thomas Hamelryck

Proceedings of the IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, 2019

2013

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

Wouter Boomsma, Jes Frellsen, Tim Harder, Sandro Bottaro, Kristoffer E. Johansson, Pengfei Tian, Kasper Stovgaard, Christian Andreetta, Simon Olsson, Jan B. Valentin, Lubomir D. Antonov, Anders S. Christensen, Mikael Borg, Jan H. Jensen, Kresten Lindorff-Larsen, Jesper Ferkinghoff-Borg, Thomas Hamelryck

J. Comput. Chem., 2013

2012

Fast large-scale clustering of protein structures using Gauss integrals.

Tim Harder, Mikael Borg, Wouter Boomsma, Peter Røgen, Thomas Hamelryck

Bioinform., 2012

Parallel GPGPU Evaluation of Small Angle X-Ray Scattering Profiles in a Markov Chain Monte Carlo Framework.

Lubomir D. Antonov, Christian Andreetta, Thomas Hamelryck

Proceedings of the Biomedical Engineering Systems and Technologies, 2012

An Efficient Parallel GPU Evaluation of Small Angle X-ray Scattering Profiles.

Lubomir D. Antonov, Christian Andreetta, Thomas Hamelryck

Proceedings of the BIOINFORMATICS 2012 - Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms, Vilamoura, Algarve, Portugal, 1, 2012

2010

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

Kasper Stovgaard, Christian Andreetta, Jesper Ferkinghoff-Borg, Thomas Hamelryck

BMC Bioinform., 2010

Mocapy++ - A toolkit for inference and learning in dynamic Bayesian networks.

Martin Paluszewski, Thomas Hamelryck

BMC Bioinform., 2010

Beyond rotamers: a generative, probabilistic model of side chains in proteins.

Tim Harder, Wouter Boomsma, Martin Paluszewski, Jes Frellsen, Kristoffer E. Johansson, Thomas Hamelryck

BMC Bioinform., 2010

2009

A Probabilistic Model of RNA Conformational Space.

Jes Frellsen, Ida Moltke, Martin Thiim, Kanti V. Mardia, Jesper Ferkinghoff-Borg, Thomas Hamelryck

PLoS Comput. Biol., 2009

Biopython: freely available Python tools for computational molecular biology and bioinformatics.

Peter J. A. Cock, Tiago Antao, Jeffrey T. Chang, Brad A. Chapman, Cymon J. Cox, Andrew Dalke, Iddo Friedberg, Thomas Hamelryck, Frank Kauff, Bartek Wilczynski, Michiel J. L. de Hoon

Bioinform., 2009

The Voronoi Diagram of Half-Balls and its Application to the Prediction of the 3D Structure of Proteins.

Francois Anton, Thomas Hamelryck

Proceedings of the Sixth International Symposium on Voronoi Diagrams, 2009

2007

An evolutionary method for learning HMM structure: prediction of protein secondary structure.

Kyoung-Jae Won, Thomas Hamelryck, Adam Prügel-Bennett, Anders Krogh

BMC Bioinform., 2007

2006

Sampling Realistic Protein Conformations Using Local Structural Bias.

Thomas Hamelryck, John T. Kent, Anders Krogh

PLoS Comput. Biol., 2006

Reconstructing protein structure from solvent exposure using tabu search.

Martin Paluszewski, Thomas Hamelryck, Pawel Winter

Algorithms Mol. Biol., 2006

2005

Full cyclic coordinate descent: solving the protein loop closure problem in C<i>alpha</i> space.

Wouter Boomsma, Thomas Hamelryck

BMC Bioinform., 2005

Evolving hidden Markov models for protein secondary structure prediction.

Kyoung-Jae Won, Thomas Hamelryck, Adam Prügel-Bennett, Anders Krogh

Proceedings of the IEEE Congress on Evolutionary Computation, 2005

2003

PDB file parser and structure class implemented in Python.

Thomas Hamelryck, Bernard Manderick

Bioinform., 2003