Henry van den Bedem

Publication Activity (10 Years)

Years Active: 2004-2022
Publications (10 Years): 13

Top Topics

Protein Structure

Recurrent Networks

Nearest Neighbor Searching

Top Venues

J. Chem. Inf. Model.

PLoS Comput. Biol.

Publications

Kate A. Stafford, Brandon M. Anderson, Jon Sorenson, Henry van den Bedem
AtomNet PoseRanker: Enriching Ligand Pose Quality for Dynamic Proteins in Virtual High-Throughput Screens. J. Chem. Inf. Model. 62 (5) (2022)
Xiyu Chen, Sigrid Leyendecker, Henry van den Bedem
Kinematic Vibrational Entropy Assessment and Analysis of SARS CoV-2 Main Protease. J. Chem. Inf. Model. 62 (11) (2022)
Aryan Pedawi, Pawel Gniewek, Chaoyi Chang, Brandon M. Anderson, Henry van den Bedem
An efficient graph generative model for navigating ultra-large combinatorial synthesis libraries. NeurIPS (2022)
Aryan Pedawi, Pawel Gniewek, Chaoyi Chang, Brandon M. Anderson, Henry van den Bedem
An efficient graph generative model for navigating ultra-large combinatorial synthesis libraries. CoRR (2022)
Po-Nan Li, Saulo Henrique Pires de Oliveira, Soichi Wakatsuki, Henry van den Bedem
Sequence-guided protein structure determination using graph convolutional and recurrent networks. BIBE (2020)
Po-Nan Li, Saulo Henrique Pires de Oliveira, Soichi Wakatsuki, Henry van den Bedem
Sequence-guided protein structure determination using graph convolutional and recurrent networks. CoRR (2020)
Dominik Budday, Sigrid Leyendecker, Henry van den Bedem
Kinematic Flexibility Analysis: Hydrogen Bonding Patterns Impart a Spatial Hierarchy of Protein Motion. CoRR (2018)
Rasmus Fonseca, Dominik Budday, Henry van den Bedem
Collision-free poisson motion planning in ultra high-dimensional molecular conformation spaces. J. Comput. Chem. 39 (12) (2018)
Dominik Budday, Sigrid Leyendecker, Henry van den Bedem
Kinematic Flexibility Analysis: Hydrogen Bonding Patterns Impart a Spatial Hierarchy of Protein Motion. J. Chem. Inf. Model. 58 (10) (2018)
Amélie Héliou, Dominik Budday, Rasmus Fonseca, Henry van den Bedem
Fast, Clash-Free RNA Conformational Morphing using Molecular Junctions. BCB (2017)
Amélie Héliou, Dominik Budday, Rasmus Fonseca, Henry van den Bedem
Fast, clash-free RNA conformational morphing using molecular junctions. Bioinform. 33 (14) (2017)
Rasmus Fonseca, Henry van den Bedem, Julie Bernauer
Probing RNA Native Conformational Ensembles with Structural Constraints. J. Comput. Biol. 23 (5) (2016)
Rasmus Fonseca, Dominik Budday, Henry van den Bedem
Collision-Free Poisson Motion Planning in Ultra High-Dimensional Molecular Conformation Spaces. CoRR (2016)
Rasmus Fonseca, Henry van den Bedem, Julie Bernauer
KGSrna: Efficient 3D Kinematics-Based Sampling for Nucleic Acids. RECOMB (2015)
Daniel A. Keedy, James S. Fraser, Henry van den Bedem
Exposing Hidden Alternative Backbone Conformations in X-ray Crystallography Using qFit. PLoS Comput. Biol. 11 (10) (2015)
Dimitar V. Pachov, Henry van den Bedem
Nullspace Sampling with Holonomic Constraints Reveals Molecular Mechanisms of Protein Gαs. PLoS Comput. Biol. 11 (7) (2015)
Ankur Dhanik, Henry van den Bedem, Ashley Deacon, Jean-Claude Latombe
Modeling Structural Heterogeneity in Proteins from X-Ray Data. WAFR (2008)
Peggy Yao, Ankur Dhanik, Nathan Marz, Ryan Propper, Charles Kou, Guanfeng Liu, Henry van den Bedem, Jean-Claude Latombe, Inbal Halperin-Landsberg, Russ B. Altman
Efficient Algorithms to Explore Conformation Spaces of Flexible Protein Loops. IEEE ACM Trans. Comput. Biol. Bioinform. 5 (4) (2008)
Ankur Dhanik, Peggy Yao, Nathan Marz, Ryan Propper, Charles Kou, Guanfeng Liu, Henry van den Bedem, Jean-Claude Latombe
Efficient Algorithms to Explore Conformation Spaces of Flexible Protein Loops. WABI (2007)
Itay Lotan, Henry van den Bedem, Ashley Deacon, Jean-Claude Latombe
Computing Protein Structures from Electron Density Maps: The Missing Fragment Problem. WAFR (2004)