139 Publications (Page 3 of 6)
2009
Computer-Aided Design of Nanocapsules for Therapeutic Delivery
Shreif, Zeina and Ortoleva, Peter
Computational and Mathematical Methods in Medicine, vol. 10, (no. 1), pp. 70, 2009. | Journal Article
 
Deriving principles of microbiology by multiscaling laws of molecular physics
Ortoleva, Peter J⋅Adhangale, P.⋅Cheluvaraja, S.⋅Fontus, M. and Shreif, Z.
IEEE Engineering in Medicine and Biology, vol. 28, (no. 2), pp. 70-79, 2009. | Journal Article
 
In Silico Geobacter sulfurreducens Metabolism and Its Representation in Reactive Transport Models.
King, E.L.⋅Tuncay, Kağan⋅Ortoleva, Peter J and Meile, Christof
Applied and environmental microbiology AEM., vol. 75, (no. 1), pp. 83-92, 2009. | Journal Article
 
Liquid-crystal transitions: a first-principles multiscale approach.
Shreif, Z⋅Pankavich, Stephen and Ortoleva, Peter J
Physical review. E, Statistical, nonlinear, and soft matter physics, vol. 80, (no. 3 Pt 1), pp. 031703, 2009/Sep. | Journal Article
 
Molecular dynamics/order parameter extrapolation for bionanosystem simulations.
Miao, Yinglong⋅Miao, Yinglong⋅Ortoleva, Peter J and Ortoleva, Peter J
Journal of computational chemistry, vol. 30, (no. 3), pp. 423-37, 2009/Feb. | Journal Article
 
Self-assembly of nanocomponents into composite structures: derivation and simulation of Langevin equations.
Pankavich, Stephen⋅Shreif, Z⋅Miao, Y and Ortoleva, Peter J
The Journal of chemical physics, vol. 130, (no. 19), pp. 194115, 2009/May/21. | Journal Article
2008
Curvilinear All-Atom Multiscale (CAM) Theory of Macromolecular Dynamics
Shreif, Z. and Ortoleva, Peter J
Journal of Statistical Physics, vol. 130, (no. 4), pp. 669-685, 2008. | Journal Article
 
Enveloped viruses understood via multiscale simulation: computer-aided vaccine design
Shreif, Z.⋅Adhangale, P.⋅Cheluvaraja, S.⋅Perera, R.⋅Kuhn, R. and Ortoleva, Peter J
Journal of Computer-Aided Materials Design, vol. 15, (no. 1-3), pp. 363-380, 2008. | Journal Article
 
Multiscale theory of collective and quasiparticle modes in quantum nanosystems.
Ortoleva, Peter J and Iyengar, S S
The Journal of chemical physics, vol. 128, (no. 16), pp. 164716, 2008/Apr/28. | Journal Article
 
Understanding stem cell differentiation through self-organization theory
Qu, K. and Ortoleva, Peter J
Journal of Theoretical Biology, vol. 250, (no. 4), pp. 606-620, 2008. | Journal Article
2007
Cancer onset and progression: A genome-wide, nonlinear dynamical systems perspective on onconetworks
Qu, K.⋅Haidar, AA⋅Fan, J.⋅Ensman, L.⋅Tuncay, Kağan⋅Jolly, M. and Ortoleva, Peter J
Journal of Theoretical Biology, vol. 246, (no. 2), pp. 234-244, 2007. | Journal Article
 
Chromosome segregation in Escherichia coli division: a free energy-driven string model.
Fan, J⋅Tuncay, K and Ortoleva, Peter J
Computational biology and chemistry, vol. 31, (no. 4), pp. 257-64, 2007/Aug. | Journal Article
 
Coexistence of twisted and untwisted crystals: An impurity/structural order model with implications for agate patterns
Comer, J and Ortoleva, Peter J
The American Mineralogist, vol. 92, (no. 11/12), Nov/Dec 2007. | Journal Article
 
Transcriptional regulatory network discovery via multiple method integration: application to e. coli K12.
Sun, Jingjun⋅Tuncay, Kağan⋅Haidar, Alaa A⋅Ensman, Lisa⋅Stanley, Frank⋅Trelinski, Michael and Ortoleva, Peter J
Algorithms for molecular biology : AMB, vol. 2, pp. 2, 2007. | Journal Article
 
Transcriptional regulatory network refinement and quantification through kinetic modeling, gene expression microarray data and information theory
Sayyed-Ahmad, Abdallah⋅Tuncay, Kağan and Ortoleva, Peter J
BMC Bioinformatics, vol. 8, pp. 20, 2007. | Journal Article
 
Transcriptional regulatory network refinement and quantification through kinetic modeling, gene expression microarray data and information theory.
Sayyed-Ahmad, Abdallah⋅Tuncay, Kagan and Ortoleva, Peter J
BMC bioinformatics, vol. 8, pp. 20, 2007. | Journal Article
 
Transcriptional Regulatory Networks via Gene Ontology and Expression Data
Tuncay, Kağan⋅Ensman, Lisa⋅Sun, Jingjun⋅Haidar, Alaa A⋅Stanley, Frank⋅Trelinski, Michael and Ortoleva, Peter J
In Silico Biology, vol. 7, (no. 1), pp. 21-34, 2007. | Journal Article
2006
All-atom multiscaling and new ensembles for dynamical nanoparticles.
Miao, Yinglong and Ortoleva, Peter J
The Journal of chemical physics, vol. 125, (no. 4), pp. 44901, 2006/Jul/28. | Journal Article
 
Involatile nanodroplets: an asymptotic analysis.
Jarymowycz, Lucien B and Ortoleva, Peter J
The Journal of chemical physics, vol. 124, (no. 23), pp. 234705, 2006/Jun/21. | Journal Article
 
Parallel implementation of a velocity-stress staggered-grid finite-difference method for 2-D poroelastic wave propagation
Sheen, Dong-Hoon⋅Tuncay, Kağan⋅Baag, Chang-Eob and Ortoleva, Peter J
Computers & Geosciences, vol. 32, (no. 8), pp. 1182-1191, 2006. | Journal Article
 
Time domain Gauss–Newton seismic waveform inversion in elastic media
Sheen, Dong‐Hoon⋅Tuncay, Kagan⋅Baag, Chang‐Eob and Ortoleva, Peter J
Geophysical Journal International, vol. 167, (no. 3), pp. 1384, December 2006. | Journal Article
 
Viral structural transitions: an all-atom multiscale theory.
Miao, Yinglong and Ortoleva, Peter J
The Journal of chemical physics, vol. 125, (no. 21), pp. 214901, 2006/Dec/7. | Journal Article
2005
Nanoparticle dynamics: a multiscale analysis of the Liouville equation.
Ortoleva, Peter J
The journal of physical chemistry. B, vol. 109, (no. 45), pp. 21258-66, 2005/Nov/17. | Journal Article
2004
Classical density functional theory of orientational order at interfaces: application to water.
Jaqaman, Khuloud⋅Tuncay, Kagan and Ortoleva, Peter J
The Journal of chemical physics, vol. 120, (no. 2), pp. 926-38, 2004/Jan/8. | Journal Article
 
Efficient solution technique for solving the Poisson-Boltzmann equation.
Sayyed-Ahmad, Abdallah⋅Tuncay, Kağan and Ortoleva, Peter J
Journal of computational chemistry, vol. 25, (no. 8), pp. 1068-74, 2004/Jun. | Journal Article