Jesús A. Izaguirre

According to our database1, Jesús A. Izaguirre
  • authored at least 37 papers between 2001 and 2014.
  • has a "Dijkstra number"2 of four.

Timeline

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Bibliography

2014
AWE-WQ: Fast-Forwarding Molecular Dynamics Using the Accelerated Weighted Ensemble.
Journal of Chemical Information and Modeling, 2014

2013
Case Studies in Designing Elastic Applications.
Proceedings of the 13th IEEE/ACM International Symposium on Cluster, 2013

2012
Folding proteins at 500 ns/hour with Work Queue.
Proceedings of the 8th IEEE International Conference on E-Science, 2012

2011
Converting a High Performance Application to an Elastic Cloud Application.
Proceedings of the IEEE 3rd International Conference on Cloud Computing Technology and Science, 2011

2010
Belief propagation estimation of protein and domain interactions using the sum-product algorithm.
IEEE Trans. Information Theory, 2010

Modeling Conformational Ensembles of Slow Functional Motions in Pin1-WW.
PLoS Computational Biology, 2010

MDLab: A molecular dynamics simulation prototyping environment.
Journal of Computational Chemistry, 2010

Estimation of Protein and Domain Interactions in the Switching Motility System of Myxococcus Xanthus.
Proceedings of the Biocomputing 2010: Proceedings of the Pacific Symposium, 2010

Multiscale Dynamics of Macromolecules Using Normal Mode Langevin.
Proceedings of the Biocomputing 2010: Proceedings of the Pacific Symposium, 2010

2009
Determination of Specificity Residues in Two Component Systems using Graphlets.
Proceedings of the International Conference on Bioinformatics & Computational Biology, 2009

2008
Biomolecular committor probability calculation enabled by processing in network storage.
Parallel Computing, 2008

Making the best of a bad situation: Prioritized storage management in GEMS.
Future Generation Comp. Syst., 2008

Addendum. Cytoprophet: a Cytoscape plug-in for protein and domain interaction networks inference.
Bioinformatics, 2008

Cytoprophet: a Cytoscape plug-in for protein and domain interaction networks inference.
Bioinformatics, 2008

2007
Predicting Protein-Protein Interactions from Protein Domains Using a Set Cover Approach.
IEEE/ACM Trans. Comput. Biology Bioinform., 2007

From Genes to Organisms Via the Cell: A Problem-Solving Environment for Multicellular Development.
Computing in Science and Engineering, 2007

A parallel implementation of the Cellular Potts Model for simulation of cell-based morphogenesis.
Computer Physics Communications, 2007

Biomolecular Path Sampling Enabled by Processing in Network Storage.
Proceedings of the 21th International Parallel and Distributed Processing Symposium (IPDPS 2007), 2007

MDL, A Domain-Specific Language for Molecular Dynamics.
Proceedings of the Proceedings 40th Annual Simulation Symposium (ANSS-40 2007), 2007

2005
A Framework for Three-Dimensional Simulation of Morphogenesis.
IEEE/ACM Trans. Comput. Biology Bioinform., 2005

Parallel multigrid summation for the N-body problem.
J. Parallel Distrib. Comput., 2005

MDSIMAID: Automatic parameter optimization in fast electrostatic algorithms.
Journal of Computational Chemistry, 2005

Separating Abstractions from Resources in a Tactical Storage System.
Proceedings of the ACM/IEEE SC2005 Conference on High Performance Networking and Computing, 2005

Generosity and gluttony in GEMS: grid enabled molecular simulations.
Proceedings of the 14th IEEE International Symposium on High Performance Distributed Computing, 2005

GIPSE: Streamlining the Management of Simulation on the Grid.
Proceedings of the Proceedings 38th Annual Simulation Symposium (ANSS-38 2005), 2005

2004
ProtoMol, an object-oriented framework for prototyping novel algorithms for molecular dynamics.
ACM Trans. Math. Softw., 2004

COMPUCELL, a multi-model framework for simulation of morphogenesis.
Bioinformatics, 2004

Improved Sampling for Biological Molecules Using Shadow Hybrid Monte Carlo.
Proceedings of the Computational Science, 2004

A Hybrid Discrete-Continuum Model for 3-D Skeletogenesis of the Vertebrate Limb.
Proceedings of the Cellular Automata, 2004

2003
Verlet-I/R-RESPA/Impulse is Limited by Nonlinear Instabilities.
SIAM J. Scientific Computing, 2003

Targeted Mollified Impulse: A Multiscale Stochastic Integrator for Long Molecular Dynamics Simulations.
Multiscale Modeling & Simulation, 2003

Nonlinear Instability in Multiple Time Stepping Molecular Dynamics.
Proceedings of the 2003 ACM Symposium on Applied Computing (SAC), 2003

Long Time Step Molecular Dynamics using Targeted Langevin Stabilization.
Proceedings of the 2003 ACM Symposium on Applied Computing (SAC), 2003

PROTOMOL: A Molecular Dynamics Research Framework for Algorithmic Development.
Proceedings of the Computational Science - ICCS 2003, 2003

Multi-model Simulations of Chicken Limb Morphogenesis.
Proceedings of the Computational Science - ICCS 2003, 2003

2001
ProtoMol: A Molecular Dynamics Framework with Incremental Parallelization.
Proceedings of the Tenth SIAM Conference on Parallel Processing for Scientific Computing, 2001

Petaflop Computing for Protein Folding.
Proceedings of the Tenth SIAM Conference on Parallel Processing for Scientific Computing, 2001


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