Jesus A. Izaguirre - Publications

Affiliations: 
University of Notre Dame, Notre Dame, IN, United States 
Area:
Computer Science, Molecular Biology, Biochemistry

19 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2014 Abdul-Wahid B, Feng H, Rajan D, Costaouec R, Darve E, Thain D, Izaguirre JA. AWE-WQ: fast-forwarding molecular dynamics using the accelerated weighted ensemble. Journal of Chemical Information and Modeling. 54: 3033-43. PMID 25207854 DOI: 10.1021/ci500321g  0.32
2013 Sweet JC, Nowling RJ, Cickovski T, Sweet CR, Pande VS, Izaguirre JA. Long Timestep Molecular Dynamics on the Graphical Processing Unit. Journal of Chemical Theory and Computation. 9: 3267-3281. PMID 24436689 DOI: 10.1021/ct400331r  0.32
2013 Nowling RJ, Abrudan JL, Shoue DA, Abdul-Wahid B, Wadsworth M, Stayback G, Collins FH, McDowell MA, Izaguirre JA. Identification of novel arthropod vector G protein-coupled receptors. Parasites & Vectors. 6: 150. PMID 23705687 DOI: 10.1186/1756-3305-6-150  0.32
2010 Morcos F, Chatterjee S, McClendon CL, Brenner PR, López-Rendón R, Zintsmaster J, Ercsey-Ravasz M, Sweet CR, Jacobson MP, Peng JW, Izaguirre JA. Modeling conformational ensembles of slow functional motions in Pin1-WW. Plos Computational Biology. 6: e1001015. PMID 21152000 DOI: 10.1371/journal.pcbi.1001015  0.32
2010 Cickovski T, Chatterjee S, Wenger J, Sweet CR, Izaguirre JA. MDLab: a molecular dynamics simulation prototyping environment. Journal of Computational Chemistry. 31: 1345-56. PMID 19882726 DOI: 10.1002/jcc.21418  0.32
2009 Sweet CR, Hampton SS, Skeel RD, Izaguirre JA. A separable shadow Hamiltonian hybrid Monte Carlo method. The Journal of Chemical Physics. 131: 174106. PMID 19894997 DOI: 10.1063/1.3253687  0.32
2009 Kanaan SP, Huang C, Wuchty S, Chen DZ, Izaguirre JA. Inferring protein-protein interactions from multiple protein domain combinations. Methods in Molecular Biology (Clifton, N.J.). 541: 43-59. PMID 19381530 DOI: 10.1007/978-1-59745-243-4_3  0.68
2008 Sweet CR, Petrone P, Pande VS, Izaguirre JA. Normal mode partitioning of Langevin dynamics for biomolecules. The Journal of Chemical Physics. 128: 145101. PMID 18412479 DOI: 10.1063/1.2883966  0.32
2007 Cickovski T, Aras K, Alber MS, Izaguirre JA, Swat M, Glazier JA, Merks RM, Glimm T, Hentschel HG, Newman SA. From Genes to Organisms Via the Cell A Problem-Solving Environment for Multicellular Development. Computing in Science & Engineering. 9: 50-60. PMID 19526065 DOI: 10.1109/MCSE.2007.74  0.32
2007 Chen N, Glazier JA, Izaguirre JA, Alber MS. A parallel implementation of the Cellular Potts Model for simulation of cell-based morphogenesis. Computer Physics Communications. 176: 670-681. PMID 18084624 DOI: 10.1016/j.cpc.2007.03.007  0.32
2007 Brenner P, Sweet CR, VonHandorf D, Izaguirre JA. Accelerating the replica exchange method through an efficient all-pairs exchange. The Journal of Chemical Physics. 126: 074103. PMID 17328589 DOI: 10.1063/1.2436872  0.32
2007 Huang C, Morcos F, Kanaan SP, Wuchty S, Chen DZ, Izaguirre JA. Predicting protein-protein interactions from protein domains using a set cover approach. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 4: 78-87. PMID 17277415 DOI: 10.1109/TCBB.2007.1001  0.68
2005 Cickovski TM, Huang C, Chaturvedi R, Glimm T, Hentschel HG, Alber MS, Glazier JA, Newman SA, Izaguirre JA. A framework for three-dimensional simulation of morphogenesis. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 2: 273-88. PMID 17044166 DOI: 10.1109/TCBB.2005.46  0.32
2005 Chaturvedi R, Huang C, Kazmierczak B, Schneider T, Izaguirre JA, Glimm T, Hentschel HG, Glazier JA, Newman SA, Alber MS. On multiscale approaches to three-dimensional modelling of morphogenesis. Journal of the Royal Society, Interface / the Royal Society. 2: 237-53. PMID 16849182 DOI: 10.1098/rsif.2005.0033  0.32
2004 Izaguirre JA, Chaturvedi R, Huang C, Cickovski T, Coffland J, Thomas G, Forgacs G, Alber M, Hentschel G, Newman SA, Glazier JA. CompuCell, a multi-model framework for simulation of morphogenesis. Bioinformatics (Oxford, England). 20: 1129-37. PMID 14764549 DOI: 10.1093/bioinformatics/bth050  0.32
2004 Chaturvedi R, Huang C, Izaguirre JA, Newman SA, Glazier JA, Alber M. A hybrid discrete-continuum model for 3-D skeletogenesis of the vertebrate limb Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 3305: 543-552.  0.32
2003 Ma Q, Izaguirre JA, Skeel RD. Verlet-I/r-RESPA/Impulse is limited by nonlinear instabilities Siam Journal On Scientific Computing. 24: 1951-1973. DOI: 10.1137/S1064827501399833  0.56
2003 Ma Q, Izaguirre JA. Long time step molecular dynamics using targeted Langevin stabilization Proceedings of the Acm Symposium On Applied Computing. 178-182.  0.96
2003 Ma Q, Izaguirre JA, Skeel RD. Nonlinear instability in multiple time stepping molecular dynamics Proceedings of the Acm Symposium On Applied Computing. 167-171.  0.6
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