Peter J. Ortoleva

12 papers Journal 12
YearRankTypeTitle / Venue / Authors
2016 J jnl
ProtoMD: A prototyping toolkit for multiscale molecular dynamics.
Comput. Phys. Commun.
Endre T. Somogyi, Andrew Abi Mansour, Peter J. Ortoleva
2015 J jnl
A Review of Two Multiscale Methods for the Simulation of Macromolecular Assemblies: Multiscale Perturbation and Multiscale Factorization.
Comput.
Stephen Pankavich, Peter J. Ortoleva
2012 J jnl
Multiscale Macromolecular Simulation: Role of Evolving Ensembles.
J. Chem. Inf. Model.
Abhishek Singharoy, Harshad Joshi, Peter J. Ortoleva
2009 J jnl
Molecular dynamics/order parameter extrapolation for bionanosystem simulations.
J. Comput. Chem.
Yinglong Miao, Peter J. Ortoleva
2007 J jnl
Chromosome segregation in Escherichia coli division: A free energy-driven string model.
Comput. Biol. Chem.
Jianmiao Fan, Kagan Tuncay, Peter J. Ortoleva
2007 J jnl
Transcriptional Regulatory Networks via Gene Ontology and Expression Data.
Silico Biol.
Kagan Tuncay, Lisa Ensman, Jingjun Sun, Alaa Abi-Haidar, Frank Stanley, Michael Trelinski, Peter J. Ortoleva
2007 J jnl
Transcriptional regulatory network discovery via multiple method integration: application to
Algorithms Mol. Biol.
Jingjun Sun, Kagan Tuncay, Alaa Abi-Haidar, Lisa Ensman, Frank Stanley, Michael Trelinski, Peter J. Ortoleva
2007 J jnl
Transcriptional regulatory network refinement and quantification through kinetic modeling, gene expression microarray data and information theory.
BMC Bioinform.
Abdallah Sayyed-Ahmad, Kagan Tuncay, Peter J. Ortoleva
2006 J jnl
Parallel implementation of a velocity-stress staggered-grid finite-difference method for 2-D poroelastic wave propagation.
Comput. Geosci.
Dong-Hoon Sheen, Kagan Tuncay, Chang-Eob Baag, Peter J. Ortoleva
2004 J jnl
Efficient solution technique for solving the Poisson-Boltzmann equation.
J. Comput. Chem.
Abdallah Sayyed-Ahmad, Kagan Tuncay, Peter J. Ortoleva
2003 J jnl
Simulating cellular dynamics through a coupled transcription, translation, metabolic model.
Comput. Biol. Chem.
Elizabeth L. Weitzke, Peter J. Ortoleva
2002 J jnl
New space warping method for the simulation of large-scale macromolecular conformational changes.
J. Comput. Chem.
Khuloud Jaqaman, Peter J. Ortoleva