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ORCIDBibTeX records: Jesús A. Izaguirre
@article{DBLP:journals/jcisd/Abdul-WahidFRCDTI14,
author = {Badi Abdul{-}Wahid and
Haoyun Feng and
Dinesh Rajan and
Ronan Costaouec and
Eric Darve and
Douglas Thain and
Jes{\'{u}}s A. Izaguirre},
title = {{AWE-WQ:} Fast-Forwarding Molecular Dynamics Using the Accelerated
Weighted Ensemble},
journal = {J. Chem. Inf. Model.},
volume = {54},
number = {10},
pages = {3033--3043},
year = {2014},
url = {https://doi.org/10.1021/ci500321g},
doi = {10.1021/CI500321G},
timestamp = {Fri, 27 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/Abdul-WahidFRCDTI14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ccgrid/RajanTAIET13,
author = {Dinesh Rajan and
Andrew Thrasher and
Badi Abdul{-}Wahid and
Jes{\'{u}}s A. Izaguirre and
Scott J. Emrich and
Douglas Thain},
title = {Case Studies in Designing Elastic Applications},
booktitle = {13th {IEEE/ACM} International Symposium on Cluster, Cloud, and Grid
Computing, CCGrid 2013, Delft, Netherlands, May 13-16, 2013},
pages = {466--473},
publisher = {{IEEE} Computer Society},
year = {2013},
url = {https://doi.org/10.1109/CCGrid.2013.46},
doi = {10.1109/CCGRID.2013.46},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ccgrid/RajanTAIET13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/eScience/Abdul-WahidYRFDTI12,
author = {Badi Abdul{-}Wahid and
Li Yu and
Dinesh Rajan and
Haoyun Feng and
Eric Darve and
Douglas Thain and
Jes{\'{u}}s A. Izaguirre},
title = {Folding proteins at 500 ns/hour with Work Queue},
booktitle = {8th {IEEE} International Conference on E-Science, e-Science 2012,
Chicago, IL, USA, October 8-12, 2012},
pages = {1--8},
publisher = {{IEEE} Computer Society},
year = {2012},
url = {https://doi.org/10.1109/eScience.2012.6404429},
doi = {10.1109/ESCIENCE.2012.6404429},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/eScience/Abdul-WahidYRFDTI12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cloudcom/RajanCIT11,
author = {Dinesh Rajan and
Anthony Canino and
Jes{\'{u}}s A. Izaguirre and
Douglas Thain},
editor = {Costas Lambrinoudakis and
Panagiotis Rizomiliotis and
Tomasz Wiktor Wlodarczyk},
title = {Converting a High Performance Application to an Elastic Cloud Application},
booktitle = {{IEEE} 3rd International Conference on Cloud Computing Technology
and Science, CloudCom 2011, Athens, Greece, November 29 - December
1, 2011},
pages = {383--390},
publisher = {{IEEE} Computer Society},
year = {2011},
url = {https://doi.org/10.1109/CloudCom.2011.58},
doi = {10.1109/CLOUDCOM.2011.58},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/cloudcom/RajanCIT11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/CickovskiCWSI10,
author = {Trevor M. Cickovski and
Santanu Chatterjee and
Jacob Wenger and
Christopher R. Sweet and
Jes{\'{u}}s A. Izaguirre},
title = {MDLab: {A} molecular dynamics simulation prototyping environment},
journal = {J. Comput. Chem.},
volume = {31},
number = {7},
pages = {1345--1356},
year = {2010},
url = {https://doi.org/10.1002/jcc.21418},
doi = {10.1002/JCC.21418},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/CickovskiCWSI10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/MorcosCMBLZESJPI10,
author = {Faruck Morcos and
Santanu Chatterjee and
Christopher L. McClendon and
Paul R. Brenner and
Roberto L{\'{o}}pez{-}Rend{\'{o}}n and
John Zintsmaster and
M{\'{a}}ria Ercsey{-}Ravasz and
Christopher R. Sweet and
Matthew P. Jacobson and
Jeffrey W. Peng and
Jes{\'{u}}s A. Izaguirre},
title = {Modeling Conformational Ensembles of Slow Functional Motions in Pin1-WW},
journal = {PLoS Comput. Biol.},
volume = {6},
number = {12},
year = {2010},
url = {https://doi.org/10.1371/journal.pcbi.1001015},
doi = {10.1371/JOURNAL.PCBI.1001015},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/MorcosCMBLZESJPI10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tit/MorcosSAKI10,
author = {Faruck Morcos and
Marcin Sikora and
Mark S. Alber and
Dale Kaiser and
Jes{\'{u}}s A. Izaguirre},
title = {Belief propagation estimation of protein and domain interactions using
the sum-product algorithm},
journal = {{IEEE} Trans. Inf. Theory},
volume = {56},
number = {2},
pages = {742--755},
year = {2010},
url = {https://doi.org/10.1109/TIT.2009.2037051},
doi = {10.1109/TIT.2009.2037051},
timestamp = {Tue, 10 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/tit/MorcosSAKI10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/MorcosSAKI10,
author = {Faruck Morcos and
Marcin Sikora and
Mark S. Alber and
Dale Kaiser and
Jes{\'{u}}s A. Izaguirre},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Estimation of Protein and Domain Interactions in the Switching Motility
System of Myxococcus Xanthus},
booktitle = {Biocomputing 2010: Proceedings of the Pacific Symposium, Kamuela,
Hawaii, USA, 4-8 January 2010},
pages = {157--165},
publisher = {World Scientific Publishing},
year = {2010},
url = {http://psb.stanford.edu/psb-online/proceedings/psb10/morcos.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/MorcosSAKI10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/psb/IzaguirreSP10,
author = {Jes{\'{u}}s A. Izaguirre and
Christopher R. Sweet and
Vijay S. Pande},
editor = {Russ B. Altman and
A. Keith Dunker and
Lawrence Hunter and
Tiffany Murray and
Teri E. Klein},
title = {Multiscale Dynamics of Macromolecules Using Normal Mode Langevin},
booktitle = {Biocomputing 2010: Proceedings of the Pacific Symposium, Kamuela,
Hawaii, USA, 4-8 January 2010},
pages = {240--251},
publisher = {World Scientific Publishing},
year = {2010},
url = {http://psb.stanford.edu/psb-online/proceedings/psb10/izaguirre.pdf},
timestamp = {Thu, 12 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/psb/IzaguirreSP10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/biocomp/MorcosLCI09,
author = {Faruck Morcos and
Charles Lamanna and
Nitesh V. Chawla and
Jes{\'{u}}s A. Izaguirre},
editor = {Hamid R. Arabnia and
Mary Qu Yang},
title = {Determination of Specificity Residues in Two Component Systems using
Graphlets},
booktitle = {International Conference on Bioinformatics {\&} Computational
Biology, {BIOCOMP} 2009, July 13-16, 2009, Las Vegas Nevada, USA,
2 Volumes},
pages = {860--866},
publisher = {{CSREA} Press},
year = {2009},
timestamp = {Wed, 23 Jan 2013 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/biocomp/MorcosLCI09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MorcosLSI08,
author = {Faruck Morcos and
Charles Lamanna and
Marcin Sikora and
Jes{\'{u}}s A. Izaguirre},
title = {Cytoprophet: a \emph{Cytoscape} plug-in for protein and domain interaction
networks inference},
journal = {Bioinform.},
volume = {24},
number = {19},
pages = {2265--2266},
year = {2008},
url = {https://doi.org/10.1093/bioinformatics/btn380},
doi = {10.1093/BIOINFORMATICS/BTN380},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MorcosLSI08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MorcosLSI08a,
author = {Faruck Morcos and
Charles Lamanna and
Marcin Sikora and
Jes{\'{u}}s A. Izaguirre},
title = {Addendum. Cytoprophet: a \emph{Cytoscape} plug-in for protein and
domain interaction networks inference},
journal = {Bioinform.},
volume = {24},
number = {23},
pages = {2805},
year = {2008},
url = {https://doi.org/10.1093/bioinformatics/btn532},
doi = {10.1093/BIOINFORMATICS/BTN532},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MorcosLSI08a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/fgcs/WozniakBTSI08,
author = {Justin M. Wozniak and
Paul R. Brenner and
Douglas Thain and
Aaron Striegel and
Jes{\'{u}}s A. Izaguirre},
title = {Making the best of a bad situation: Prioritized storage management
in {GEMS}},
journal = {Future Gener. Comput. Syst.},
volume = {24},
number = {1},
pages = {10--16},
year = {2008},
url = {https://doi.org/10.1016/j.future.2007.04.003},
doi = {10.1016/J.FUTURE.2007.04.003},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/fgcs/WozniakBTSI08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/pc/BrennerWTSPI08,
author = {Paul R. Brenner and
Justin M. Wozniak and
Douglas Thain and
Aaron Striegel and
Jeffrey W. Peng and
Jes{\'{u}}s A. Izaguirre},
title = {Biomolecular committor probability calculation enabled by processing
in network storage},
journal = {Parallel Comput.},
volume = {34},
number = {11},
pages = {652--660},
year = {2008},
url = {https://doi.org/10.1016/j.parco.2008.08.001},
doi = {10.1016/J.PARCO.2008.08.001},
timestamp = {Sat, 22 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/pc/BrennerWTSPI08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cphysics/ChenGIA07,
author = {Nan Chen and
James A. Glazier and
Jes{\'{u}}s A. Izaguirre and
Mark S. Alber},
title = {A parallel implementation of the Cellular Potts Model for simulation
of cell-based morphogenesis},
journal = {Comput. Phys. Commun.},
volume = {176},
number = {11-12},
pages = {670--681},
year = {2007},
url = {https://doi.org/10.1016/j.cpc.2007.03.007},
doi = {10.1016/J.CPC.2007.03.007},
timestamp = {Thu, 23 Jun 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/cphysics/ChenGIA07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cse/CickovskiASMGHAGNI07,
author = {Trevor M. Cickovski and
Kedar Aras and
Maciej Swat and
Roeland Merks and
Tilmann Glimm and
H. George E. Hentschel and
Mark S. Alber and
James A. Glazier and
Stuart A. Newman and
Jes{\'{u}}s A. Izaguirre},
title = {From Genes to Organisms Via the Cell: {A} Problem-Solving Environment
for Multicellular Development},
journal = {Comput. Sci. Eng.},
volume = {9},
number = {4},
pages = {50--60},
year = {2007},
url = {https://doi.org/10.1109/MCSE.2007.74},
doi = {10.1109/MCSE.2007.74},
timestamp = {Thu, 23 Jun 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/cse/CickovskiASMGHAGNI07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/HuangMKWCI07,
author = {Chengbang Huang and
Faruck Morcos and
Simon P. Kanaan and
Stefan Wuchty and
Danny Z. Chen and
Jes{\'{u}}s A. Izaguirre},
title = {Predicting Protein-Protein Interactions from Protein Domains Using
a Set Cover Approach},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {4},
number = {1},
pages = {78--87},
year = {2007},
url = {https://doi.org/10.1109/TCBB.2007.1001},
doi = {10.1109/TCBB.2007.1001},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/HuangMKWCI07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/anss/CickovskiSI07,
author = {Trevor M. Cickovski and
Chris Sweet and
Jes{\'{u}}s A. Izaguirre},
title = {MDL, {A} Domain-Specific Language for Molecular Dynamics},
booktitle = {Proceedings 40th Annual Simulation Symposium {(ANSS-40} 2007), 26-28
March 2007, Norfolk, Virginia, {USA}},
pages = {256--266},
publisher = {{IEEE} Computer Society},
year = {2007},
url = {https://doi.org/10.1109/ANSS.2007.26},
doi = {10.1109/ANSS.2007.26},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/anss/CickovskiSI07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ipps/BrennerWTSPI07,
author = {Paul R. Brenner and
Justin M. Wozniak and
Douglas Thain and
Aaron Striegel and
Jeffrey W. Peng and
Jes{\'{u}}s A. Izaguirre},
title = {Biomolecular Path Sampling Enabled by Processing in Network Storage},
booktitle = {21th International Parallel and Distributed Processing Symposium {(IPDPS}
2007), Proceedings, 26-30 March 2007, Long Beach, California, {USA}},
pages = {1--6},
publisher = {{IEEE}},
year = {2007},
url = {https://doi.org/10.1109/IPDPS.2007.370446},
doi = {10.1109/IPDPS.2007.370446},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/ipps/BrennerWTSPI07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcc/CrockerHMI05,
author = {Michael S. Crocker and
Scott S. Hampton and
Thierry Matthey and
Jes{\'{u}}s A. Izaguirre},
title = {{MDSIMAID:} Automatic parameter optimization in fast electrostatic
algorithms},
journal = {J. Comput. Chem.},
volume = {26},
number = {10},
pages = {1021--1031},
year = {2005},
url = {https://doi.org/10.1002/jcc.20240},
doi = {10.1002/JCC.20240},
timestamp = {Wed, 01 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcc/CrockerHMI05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jpdc/IzaguirreHM05,
author = {Jes{\'{u}}s A. Izaguirre and
Scott S. Hampton and
Thierry Matthey},
title = {Parallel multigrid summation for the \emph{N}-body problem},
journal = {J. Parallel Distributed Comput.},
volume = {65},
number = {8},
pages = {949--962},
year = {2005},
url = {https://doi.org/10.1016/j.jpdc.2005.03.006},
doi = {10.1016/J.JPDC.2005.03.006},
timestamp = {Sat, 22 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jpdc/IzaguirreHM05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/CickovskiHCGHAGNI05,
author = {Trevor M. Cickovski and
Chengbang Huang and
Rajiv Chaturvedi and
Tilmann Glimm and
H. George E. Hentschel and
Mark S. Alber and
James A. Glazier and
Stuart A. Newman and
Jes{\'{u}}s A. Izaguirre},
title = {A Framework for Three-Dimensional Simulation of Morphogenesis},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {2},
number = {4},
pages = {273--288},
year = {2005},
url = {https://doi.org/10.1109/TCBB.2005.46},
doi = {10.1109/TCBB.2005.46},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/CickovskiHCGHAGNI05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/anss/WozniakSSI05,
author = {Justin M. Wozniak and
Aaron Striegel and
David Salyers and
Jes{\'{u}}s A. Izaguirre},
title = {{GIPSE:} Streamlining the Management of Simulation on the Grid},
booktitle = {Proceedings 38th Annual Simulation Symposium {(ANSS-38} 2005), 4-6
April 2005, San Diego, CA, {USA}},
pages = {130--137},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/ANSS.2005.22},
doi = {10.1109/ANSS.2005.22},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/anss/WozniakSSI05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/hpdc/WozniakBTSI05,
author = {Justin M. Wozniak and
Paul R. Brenner and
Douglas Thain and
Aaron Striegel and
Jes{\'{u}}s A. Izaguirre},
title = {Generosity and gluttony in {GEMS:} grid enabled molecular simulations},
booktitle = {Proceedings of the 14th {IEEE} International Symposium on High Performance
Distributed Computing, HPDC-14, Research Triangle Park, North Carolina,
USA, 24-27 July 2005},
pages = {191--200},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/HPDC.2005.1520959},
doi = {10.1109/HPDC.2005.1520959},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/hpdc/WozniakBTSI05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/sc/ThainKWBSI05,
author = {Douglas Thain and
Sander Klous and
Justin M. Wozniak and
Paul R. Brenner and
Aaron Striegel and
Jes{\'{u}}s A. Izaguirre},
title = {Separating Abstractions from Resources in a Tactical Storage System},
booktitle = {Proceedings of the {ACM/IEEE} {SC2005} Conference on High Performance
Networking and Computing, November 12-18, 2005, Seattle, WA, USA,
CD-Rom},
pages = {55},
publisher = {{IEEE} Computer Society},
year = {2005},
url = {https://doi.org/10.1109/SC.2005.64},
doi = {10.1109/SC.2005.64},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/sc/ThainKWBSI05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/IzaguirreCHCCTFAHNG04,
author = {Jes{\'{u}}s A. Izaguirre and
Rajiv Chaturvedi and
Chengbang Huang and
Trevor M. Cickovski and
J. Coffland and
Gilberto L. Thomas and
Gabor Forgacs and
Mark S. Alber and
H. George E. Hentschel and
Stuart A. Newman and
James A. Glazier},
title = {COMPUCELL, a multi-model framework for simulation of morphogenesis},
journal = {Bioinform.},
volume = {20},
number = {7},
pages = {1129--1137},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/bth050},
doi = {10.1093/BIOINFORMATICS/BTH050},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/IzaguirreCHCCTFAHNG04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/toms/MattheyCHKMNRSI04,
author = {Thierry Matthey and
Trevor M. Cickovski and
Scott S. Hampton and
Alice Ko and
Qun Ma and
Matthew Nyerges and
Troy Raeder and
Thomas Slabach and
Jes{\'{u}}s A. Izaguirre},
title = {ProtoMol, an object-oriented framework for prototyping novel algorithms
for molecular dynamics},
journal = {{ACM} Trans. Math. Softw.},
volume = {30},
number = {3},
pages = {237--265},
year = {2004},
url = {https://doi.org/10.1145/1024074.1024075},
doi = {10.1145/1024074.1024075},
timestamp = {Tue, 16 Aug 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/toms/MattheyCHKMNRSI04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/acri/ChaturvediHINGA04,
author = {Rajiv Chaturvedi and
Chengbang Huang and
Jes{\'{u}}s A. Izaguirre and
Stuart A. Newman and
James A. Glazier and
Mark S. Alber},
editor = {Peter M. A. Sloot and
Bastien Chopard and
Alfons G. Hoekstra},
title = {A Hybrid Discrete-Continuum Model for 3-D Skeletogenesis of the Vertebrate
Limb},
booktitle = {Cellular Automata, 6th International Conference on Cellular Automata
for Research and Industry, {ACRI} 2004, Amsterdam, The Netherlands,
October 25-28, 2004, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {3305},
pages = {543--552},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-30479-1\_56},
doi = {10.1007/978-3-540-30479-1\_56},
timestamp = {Thu, 23 Jun 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/acri/ChaturvediHINGA04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccS/HamptonI04,
author = {Scott S. Hampton and
Jes{\'{u}}s A. Izaguirre},
editor = {Marian Bubak and
G. Dick van Albada and
Peter M. A. Sloot and
Jack J. Dongarra},
title = {Improved Sampling for Biological Molecules Using Shadow Hybrid Monte
Carlo},
booktitle = {Computational Science - {ICCS} 2004, 4th International Conference,
Krak{\'{o}}w, Poland, June 6-9, 2004, Proceedings, Part {II}},
series = {Lecture Notes in Computer Science},
volume = {3037},
pages = {268--275},
publisher = {Springer},
year = {2004},
url = {https://doi.org/10.1007/978-3-540-24687-9\_34},
doi = {10.1007/978-3-540-24687-9\_34},
timestamp = {Tue, 14 May 2019 10:00:48 +0200},
biburl = {https://dblp.org/rec/conf/iccS/HamptonI04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/mmas/MaI03,
author = {Qun Ma and
Jes{\'{u}}s A. Izaguirre},
title = {Targeted Mollified Impulse: {A} Multiscale Stochastic Integrator for
Long Molecular Dynamics Simulations},
journal = {Multiscale Model. Simul.},
volume = {2},
number = {1},
pages = {1--21},
year = {2003},
url = {https://doi.org/10.1137/S1540345903423567},
doi = {10.1137/S1540345903423567},
timestamp = {Tue, 31 Mar 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/mmas/MaI03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/siamsc/MaIS03,
author = {Qun Ma and
Jes{\'{u}}s A. Izaguirre and
Robert D. Skeel},
title = {Verlet-I/R-RESPA/Impulse is Limited by Nonlinear Instabilities},
journal = {{SIAM} J. Sci. Comput.},
volume = {24},
number = {6},
pages = {1951--1973},
year = {2003},
url = {https://doi.org/10.1137/S1064827501399833},
doi = {10.1137/S1064827501399833},
timestamp = {Thu, 30 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/siamsc/MaIS03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccS/ChaturvediIHCVTFAHNG03,
author = {Rajiv Chaturvedi and
Jes{\'{u}}s A. Izaguirre and
Chengbang Huang and
Trevor M. Cickovski and
P. Virtue and
Gilberto L. Thomas and
Gabor Forgacs and
Mark S. Alber and
H. George E. Hentschel and
Stuart A. Newman and
James A. Glazier},
editor = {Peter M. A. Sloot and
David Abramson and
Alexander V. Bogdanov and
Jack J. Dongarra and
Albert Y. Zomaya and
Yuri E. Gorbachev},
title = {Multi-model Simulations of Chicken Limb Morphogenesis},
booktitle = {Computational Science - {ICCS} 2003, International Conference, Melbourne,
Australia and St. Petersburg, Russia, June 2-4, 2003. Proceedings,
Part {III}},
series = {Lecture Notes in Computer Science},
volume = {2659},
pages = {39--49},
publisher = {Springer},
year = {2003},
url = {https://doi.org/10.1007/3-540-44863-2\_5},
doi = {10.1007/3-540-44863-2\_5},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/iccS/ChaturvediIHCVTFAHNG03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iccS/MattheyKI03,
author = {Thierry Matthey and
Alice Ko and
Jes{\'{u}}s A. Izaguirre},
editor = {Peter M. A. Sloot and
David Abramson and
Alexander V. Bogdanov and
Jack J. Dongarra and
Albert Y. Zomaya and
Yuri E. Gorbachev},
title = {{PROTOMOL:} {A} Molecular Dynamics Research Framework for Algorithmic
Development},
booktitle = {Computational Science - {ICCS} 2003, International Conference, Melbourne,
Australia and St. Petersburg, Russia, June 2-4, 2003. Proceedings,
Part {III}},
series = {Lecture Notes in Computer Science},
volume = {2659},
pages = {50--59},
publisher = {Springer},
year = {2003},
url = {https://doi.org/10.1007/3-540-44863-2\_6},
doi = {10.1007/3-540-44863-2\_6},
timestamp = {Sun, 21 May 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/iccS/MattheyKI03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/sac/MaIS03,
author = {Qun Ma and
Jes{\'{u}}s A. Izaguirre and
Robert D. Skeel},
editor = {Gary B. Lamont and
Hisham Haddad and
George A. Papadopoulos and
Brajendra Panda},
title = {Nonlinear Instability in Multiple Time Stepping Molecular Dynamics},
booktitle = {Proceedings of the 2003 {ACM} Symposium on Applied Computing (SAC),
March 9-12, 2003, Melbourne, FL, {USA}},
pages = {167--171},
publisher = {{ACM}},
year = {2003},
url = {https://doi.org/10.1145/952532.952568},
doi = {10.1145/952532.952568},
timestamp = {Tue, 06 Nov 2018 11:06:45 +0100},
biburl = {https://dblp.org/rec/conf/sac/MaIS03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/sac/MaI03,
author = {Qun Ma and
Jes{\'{u}}s A. Izaguirre},
editor = {Gary B. Lamont and
Hisham Haddad and
George A. Papadopoulos and
Brajendra Panda},
title = {Long Time Step Molecular Dynamics using Targeted Langevin Stabilization},
booktitle = {Proceedings of the 2003 {ACM} Symposium on Applied Computing (SAC),
March 9-12, 2003, Melbourne, FL, {USA}},
pages = {178--182},
publisher = {{ACM}},
year = {2003},
url = {https://doi.org/10.1145/952532.952570},
doi = {10.1145/952532.952570},
timestamp = {Tue, 06 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/sac/MaI03.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ppsc/KuntzMNIK01,
author = {Shannon K. Kuntz and
Richard C. Murphy and
Michael T. Niemier and
Jes{\'{u}}s A. Izaguirre and
Peter M. Kogge},
title = {Petaflop Computing for Protein Folding},
booktitle = {Proceedings of the Tenth {SIAM} Conference on Parallel Processing
for Scientific Computing, {PPSC} 2001, Portsmouth, Virginia, USA,
March 12-14, 2001},
publisher = {{SIAM}},
year = {2001},
timestamp = {Mon, 20 Mar 2017 14:21:45 +0100},
biburl = {https://dblp.org/rec/conf/ppsc/KuntzMNIK01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ppsc/MattheyI01,
author = {Thierry Matthey and
Jes{\'{u}}s A. Izaguirre},
title = {ProtoMol: {A} Molecular Dynamics Framework with Incremental Parallelization},
booktitle = {Proceedings of the Tenth {SIAM} Conference on Parallel Processing
for Scientific Computing, {PPSC} 2001, Portsmouth, Virginia, USA,
March 12-14, 2001},
publisher = {{SIAM}},
year = {2001},
timestamp = {Mon, 20 Mar 2017 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ppsc/MattheyI01.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@phdthesis{DBLP:phd/us/Paz99,
author = {Jes{\'{u}}s A. Izaguirre},
title = {Longer Time Steps for Molecular Dynamics},
school = {University of Illinois Urbana-Champaign, {USA}},
year = {1999},
url = {https://hdl.handle.net/2142/81958},
timestamp = {Thu, 14 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/phd/us/Paz99.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@incollection{DBLP:books/sp/99/SkeelI99,
author = {Robert D. Skeel and
Jes{\'{u}}s A. Izaguirre},
editor = {Peter Deuflhard and
Jan Hermans and
Benedict J. Leimkuhler and
Alan E. Mark and
Sebastian Reich and
Robert D. Skeel},
title = {The Five Femtosecond Time Step Barrier},
booktitle = {Computational Molecular Dynamics: Challenges, Methods, Ideas},
series = {Lecture Notes in Computational Science and Engineering},
volume = {4},
pages = {318--331},
publisher = {Springer},
year = {1999},
url = {https://doi.org/10.1007/978-3-642-58360-5\_17},
doi = {10.1007/978-3-642-58360-5\_17},
timestamp = {Thu, 09 Apr 2020 15:57:30 +0200},
biburl = {https://dblp.org/rec/books/sp/99/SkeelI99.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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