%
%

Research and Publications that make use of PETSc


%
%

Nano-simulations


%
@article{
scholz-batra1,
author = {W. Scholz and S. Batra},
title = "Micromagnetic Simulation of Head Field and Write Bubble Dynamics in Perpendicular Recording",
journal = {IEEE Trans. Magn.},
note = {submitted},
year = 2005
}
@article{scholz-batra2,
author = {W. Scholz and S. Batra},
title = "Micromagnetic Modeling of Head Field Rise Time for High Data-Rate Recording",
journal = {IEEE Trans. Magn.},
volume = 41,
year = 2005,
pages = {702-706}
}
@article{daquino-scholz1,
author = {M. d'Aquino and W. Scholz and T. Schrefl and C. Serpico and J. Fidler},
title = "Micromagnetic Analysis of Fast Precessional Switching",
journal = {J. Magn. Magn. Mater.},
volume = {290-291},
year = 2005,
pages = {510-513}
}
@article{aq-scholz-fid,
author = {M. d'Aquino and W. Scholz and T. Schrefl and C. Serpico and J. Fidler},
title = "Numerical and analytical study of fast precessional switching",
journal = {J. Appl. Phys.},
volume = 95,
year = 2004,
pages = {7055-7057}
}
@inproceedings{gar-tabik-gar,
author = {E. M. Garzon and S. Tabik and I. Garcia and A. R. Bretones},
title = "Multiprocessing of the Time Domain Analysis of Thin-Wire Antennas and Scatterers",
booktitle = {12th Euromicro Conference on Parallel, Distributed and Network-Based Processing (PDP'04)},
year = 2004,
pages = {80--}
}
@inproceedings{aq-scholz-mia,
author = {M. d'Aquino and W. Scholz and T. Schrefl and C. Serpico and G. Miano},
title = "Analysis of fast precessional switching in magnetic thin films",
booktitle = {Proceedings of PIERS (Progress In Electromagnetic Research Symposium)},
year = 2004,
pages = {257-260}
}
@article{scholz-fid-seus,
author = {W. Scholz and J. Fidler and T. Schrefl and D. Suess and H. Forster and R. Dittrich and V. Tsiantos},
title = "Numerical Micromagnetic Simulation of Fe-Pt Nanoparticles with Multiple Easy Axes",
journal = {J. Magn. Magn. Mater.},
year = 2004,
pages = {1524-1525}
}
@article{boardman-zimmerman,
author = {Richard Boardman and Juergen Zimmermann and Hans Fangohr and Alexander Zhukov and Peter de Groot},
title = "Micromagnetic simulation studies of ferromagnetic part-spheres",
journal = {Journal of Applied Physics},
year = 2005
}
@article{lim-kim-park,
author = {C. K. Lim and Y. S. Kim and N. Y. Park and J. Lee},
title = "High Density Magnetic Random Access Memory Using a Pair of Asymmetrical Cell",
journal = {IEEE Trans. Magn.},
note = {submitted}
}
@article{scholz-suess2,
author = {W. Scholz and D. Suess and T. Schrefl and and J. Fidler},
title = "Micromagnetic simulation of magnetization reversal in small particles with surface anisotropy",
journal = {J. Appl. Phys.},
volume = 95,
year = 2004,
pages = {6807-6809}
}
@article{scholz-schrefl1,
author = {W. Scholz and T. Schrefl and J. Fidler and T. Matthias and D. Suess and V. Tsiantos},
title = "Micromagnetic simulation of the pinning and depinning process in permanent magnets",
journal = {IEEE Trans. Magn.},
volume = 39,
year = 2003,
pages = {2920-2922}
}
@article{scholz-guslienko,
author = {W. Scholz and K. Y. Guslienko and V. Novosad and D. Suess and T. Schrefl and R. W. Chantrell and J. Fidler},
title = "Transition from single-domain to vortex state in soft magnetic cylindrical nanodots",
journal = {J. Magn. Magn. Mater.},
volume = 266,
year = 2003,
pages = {155-163}
}
@article{scholz1,
author = { W. Scholz and J. Fidler and T. Schrefl and D. Suess and R. Dittrich and H. Forster and V. Tsiantos},
title = "Scalable Parallel Micromagnetic Solvers for Magnetic Nanostructures",
journal = "Comp. Mat. Sci",
year = 2003,
pages = "366--383",
volume = 28,
url = {http://magnet.atp.tuwien.ac.at/scholz/projects/papers/preprint/scholz/cms03/magpar.pdf}
}
@phdthesis{scholz2,
author = {W. Scholz},
title = "Scalable Parallel Micromagnetic Solvers for Magnetic Nanostructures",
school = {Vienna University of Technology, Vienna, Austria},
year = 2003
}
@article{scholz3,
author = {W. Scholz and D. Suess and R. Dittrich and T. Schrefl and V. Tsiantos and H. Forster and J. Fidler},
title = "Implementation of a high performance parallel finite element micromagnetics package",
journal = {J. Magn. Magn. Mater.},
year = 2004,
url = {http://magnet.atp.tuwien.ac.at/scholz/projects/papers/preprint/scholz/icm2003/scholz_petsc.pdf}
}
%

@InBook{zhanggladwell1,
AUTHOR = "W. Zhang and I. Gladwell",
chapter = "Performance of MOL for Surface Motion Driven by a Laplacian of Curvature",
editor = "Z. Chen and R.E. Ewing and Z.-C. Shi",
YEAR = "2000",
TITLE = "Numerical Treatment of Multiphase Flows in Porous Media, Lecture Notes in Physics, vol. 552",
publisher = "Springer",
pages = "4190-"
}
@article{wolf1,
author = "A. J. Haslan and D. Moldovan and S. R. Phillpot and V. Yamakov",
title = "Combined Atomistic and Mesoscale simulation of grain growth in nanocrystalline thin films",
journal = "Phil. Mag. A",
year = "2003",
Lab = {ANL}
}
@article{wolf2,
author = "A. J. Haslan and D. Moldovan and S. R. Phillpot and H. Gleiter",
title = "Mesoscopic simulation of two dimensional grain growth with anisotropic grain-boundary properties",
journal = "Computational Materials Science",
year = "2001",
volume = "23",
pages = "15--32",
Lab = {ANL}
}
@article{wolf3,
author = "D. Moldovan and S. R. Phillpot and A. J. Haslan",
title = "Role of grain rotation in grain growth by mesoscale simulation",
journal = "Phil. Mag. A",
year = "2002",
volume = "82",
pages = "1271--1297",
Lab = {ANL}
}
%

@article{saut,
author = { Olivier Saut},
title = "Bidimensional Study of the Maxwell-Bloch Model in a Nonlinear Crystal",
journal = "SIAM Journal on Scientific Computing",
year = 2004,
note = "submitted",
url = {http://mip.ups-tlse.fr/\~{ }saut/data/sisc04.pdf}
}
%
%

Biology/Medical


%
@article{
Ataseven,
author = {Y. Ataseven and Z. Akal\iota n-Acar and C.~E. Acar and N. G. Gen\c{c}er},
title = {Parallel implementation of the accelerated BEM approach for EMSI of the human brain},
journal = {Medical and Biological Engineering and Computing},
month = {February},
year = {2008},
note = {doi 10.1007/s11517-008-0316-0}
}
@article{dennis-eberhart-03,
author = {B. H. Dennis and R. C. Eberhart and G. S. Dulikravich and S.W. Radons},
pages = "832-840",
volume = 125,
number = 6,
title = "Finite-element simulation of cooling of realistic 3-D human head and neck",
journal = "J Biomech Eng",
year = 2003,
url = {http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=14986408&dopt=Citation}
}
@article{MotrescuRienen05,
author = {V. C. Motrescu and U. van Rienen},
pages = "227--231",
volume = 3,
title = "Computation of currents induced by ELF electric fields in anisotropic human tissues using the Finite Integration Technique",
journal = "Advances in Radio Science",
year = 2005,
url = {http://www.copernicus.org/URSI/ars/3/ars-3-227.pdf}
}
@article{MotrescuRienen04,
author = {V. C. Motrescu and U. van Rienen},
pages = "309--313",
volume = 2,
title = "Computation of electrostatic fields in anisotropic human tissues using the Finite Integration Technique (FIT)",
journal = "Advances in Radio Science",
year = 2004,
url = {http://www.copernicus.org/URSI/ars/ARS_2_1/309.pdf}
}
@InProceedings{dbl2,
author = "Enzo A. Dari and Mariano I. Cantero and Raul A. Feijoo",
title = "Computational arterial flow modeling using a parallel Navier-Stokes solver",
booktitle = "ECCOMAS2000",
year = "2000",
url = "http://146.134.8.133/Feijoo/CModComplexos/Conferencias/ECCOMAS2000/Darie/eccomas.html"
}
@Unpublished{cell,
title = {Parallel Simulation Engines for Whole-Cell Models},
author = {Markus Schwehm and Nils Gehlenborg and Hendrik Post and Amelie Stein and Kirstin Weber},
note = {Poster at Second International Conference on Systems Biology (ICSB) 2001},
url = {http://www.icsb-2001.org/Posters/110_schwehm2.pdf},
institution = {University of Tubingen, ZBIT - Zentrum fur Bioinformatik Tubingen},
year = 2001
}
%

%
% src="images/spine0l.jpg">


%
% src="images/vertebra.jpg">


%
%Treating fractures of the hip and spine is a major medical cost.
%Understanding bone mechanical properties and how they may lead to
%fractures is thus an important medical research activity. PETSc and
%Prometheus have been used for extremely large scale finite element
%simulation of the solid mechanics of a portion of a human spine by a
%team of doctors and computational scientists. This computation was
%a winner of a Gordon Bell Special Prize at SC2004 and ran scalably
%with over 4000 processors.


%

@Inproceedings{Adams-04,
author = {M. F. Adams and Harun H. Bayraktar and Tony M. Keaveny and Panayiotis Papadopoulos},
title = {Ultrascalable Implicit Finite Element Analyses in Solid Mechanics with over a Half a Billion Degrees of Freedom},
note = {Winner of Gordon Bell Special Prize at SC2004: Large scale trabecular bone finite element modeling},
booktitle = {Proceedings of SC04},
url = {http://www.sc-conference.org/sc2004/schedule/pdfs/pap111.pdf},
Lab = {LBL}
}
@InProceedings{Adams-03b,
author = {Adams, M.~F. and Bayraktar, H.H. and Keaveny, T.M. and Papadopoulos, P.},
title = {Applications of Algebraic Multigrid to Large-Scale Finite Element Analysis of Whole Bone Micro-Mechanics on the IBM SP},
booktitle = {ACM/IEEE Proceedings of SC2003: High Performance Networking and Computing},
year = {2003},
Lab = {LBL}
}
@inproceedings{oghattas2002,
author = "Volkan Akcelik and George Biros and Omar Ghattas",
title = "Parallel Multiscale Gauss-Newton-Krylov Methods For Inverse Wave Propagation",
booktitle = "Procceedings of SC2002",
url = "http://www-2.cs.cmu.edu/\~{ }oghattas/papers/sc2002.pdf",
note = "Winner of SC2002 Best Paper. A parallel algorithm for inverse problems governed by time-dependent PDEs, and scalability results for an inverse wave propagation problem of determining the material field of an acoustic medium. Using the algorithm, they solved a synthetic inverse wave propagation problem though a pelvic bone geometry involving 2.1 million inversion parameters in 3 hours on 256 processors.",
year = "2002"
}
%
%

%
% src="images/heart.jpg">
% % src="images/pump.jpg">


%
%
% Arrhythmias are disorders of the regular rhythmic beating of the
% heart; they are the cause of the majority of sudden cardiac
% deaths. The heart beat is controlled by electrical signals moving
% through the heart. PETSc has been used by several research groups to
% simulate the electronic behavior of the heart in an attempt to more
% fully understand the developments of arrhthmias.


%

@inproceedings{
oghattas2000,
author = "J. Antaki and G. Belloch and O. Ghattas and I. Malcevic and G. Miller and N. Walkington",
title = "A Parallel Dynamic-Mesh Lagrangian Method for Simulation of Flows with Dynamic Interfaces",
booktitle = "Procceedings of SC2000",
url = "http://www.cs.cmu.edu/\~{ }oghattas/papers/sc2000/sc2000.pdf",
note = "Blood flow modeling at the microscale including effects on individual blood cells, for designing heart assist pumps, etc.",
year = "2000"
}
@InBook{cfps2006,
author = {P. Colli Franzone and L. F. Pavarino and G. Savare},
editor = {A. Quarteroni et al.},
title = {Complex Systems in Biomedicine},
chapter = {Computational Electrocardiology: mathematical and numerical modeling},
publisher = {Springer-Verlag},
pages = {187--241},
year = {2006}
}
@Inproceedings{cfpst2007,
author = {P. Colli Franzone and L. F. Pavarino and S. Scacchi and B. Taccardi},
title = {Determining recovery times from transmembrane action potentials and unipolar electrograms in normal heart tissue},
booktitle = {FIMH07},
publisher = {Springer-Verlag},
volume = {4466},
pages = {139--149},
year = {2007}
}
@INPROCEEDINGS{pft2005,
AUTHOR = "Luca F. Pavarino and Piero Colli Franzone and Bruno Taccardi",
TITLE = "Monodomain Simulations of Excitation and Recovery in Cardiac Blocks with Intramural Heterogeneity",
BOOKTITLE = "Functional Imaging and modeling of the Heart (FIMH05)",
PAGES = "267--277",
EDITORS = "A. Frangi et al.",
PUBLISHER = "Springer, Lecture Notes in Computer Science (LNCS), v. 3504",
YEAR = "2005"
}
@phdthesis{Griffith05,
author = {Boyce Griffith},
title = {Simulating the blood-muscle-valve mechanics of the heart by an adaptive and parallel version of the immersed boundary method},
school = {New York University},
year = 2005
}
@phdthesis{Murillo,
author = {Maria S. Murillo},
title = {Parallel Algorithms and Software for Time-Dependent System of Nonlinear Partial Differential Equations with an Application in Computational Biology},
school = {University of Colorado at Boulder},
year = 2002
}
@article{spv2004,
author = "Rodrigo Weber Dos Santos and G. Plank and S. Bauer",
title = "Parallel multigrid preconditioner for the cardiac bidomain model",
journal = "IEEE Trans. Biomed. Eng",
year = "2004",
volume = "51",
pages = "1960--1968"
}
@article{vphl2003,
author = "E. J. Vigmond and M. Hughes and G. Plank, L.J. Leon",
title = " Computational Tools for Modeling Electrical Activity in Cardiac Tissue",
journal = "J. Electrocardiol.",
year = "2003",
volume = "36",
pages = "69--74"
}
@INPROCEEDINGS{spbv2003,
AUTHOR = "Rodrigo Weber Dos Santos and G. Plank and S. Bauer and and E.J. Vigmond",
TITLE = "Preconditioning Techniques for the Bidomain Equations",
BOOKTITLE = "Proceedings of the 15th International Conference on Domain Decomposition Methods",
PAGES = "571--580",
PUBLISHER = "Springer, Lecture Notes in Computational Science and Engineering (LNCSE).",
NOTE = "",
URL = "http://www.ddm.org/DD15/proceedings-dd15.html",
YEAR = "2003"
}
@article{franz-pavir-04,
author = "P. Colli Franzone and L.~F. Pavarino",
title = "A parallel solver for reaction-diffusion systems in computational electrocardiology",
journal = "Mathematical Models and Methods in Applied Sciences",
year = "2004",
volume = "14",
number = 6,
pages = "883--912"
}
@article{franz-pavir-05,
author = "P. Colli Franzone and L.~F. Pavarino and B. Taccardi",
title = "Simulating patterns of excitation, repolarization and action potential durationwith cardiac Bidomain and Monodomain models",
journal = "Mathematical Biosciences",
year = "2005",
volume = "197",
number = 1,
pages = "35--66"
}
@article{franz-pavir-06,
author = "P. Colli Franzone and L.~F. Pavarino and B. Taccardi",
title = "Effects of transmural electrical heterogeneities and electrotonic interactions on the dispersion of cardiac repolarization and action potential duration: a simulation study",
journal = "Mathematical Biosciences",
year = "2006",
volume = "204",
number = 1,
pages = "132--165"
}
@INPROCEEDINGS{colli-franz-sim,
AUTHOR = "P. Colli-Franzone and L.F. Pavarino and B. Taccardi",
TITLE = "MODELING ANISOTROPIC AND HETEROGENEOUS CARDIAC MODELS: PARALLEL SIMULATIONS",
BOOKTITLE = "MEDICON and HEALTH TELEMATICS 2004, Health in the Information Society, X Mediterranean Conference on Medical and Biological Engineering",
URL = "http://cluster.mat.unimi.it/doc/Progetti/Pavarino-LF.pdf",
YEAR = "2004"
}
@INPROCEEDINGS{pf2003,
AUTHOR = "Luca F. Pavarino and Piero Colli Franzone",
TITLE = "Parallel Solution of Cardiac Reaction-Diffusion Models",
BOOKTITLE = "Proceedings of the 15th International Conference on Domain Decomposition Methods",
PAGES = "669--776",
PUBLISHER = "Springer, Lecture Notes in Computational Science and Engineering (LNCSE).",
NOTE = "",
URL = "http://www.ddm.org/DD15/proceedings-dd15.html",
YEAR = "2003"
}
@article{maria-is04,
author = "Maria Murillo and Xiao-Chuan Cai",
title = "A fully implicit parallel algorithm for simulating the non-linear electrical activity of the heart",
journal = "Numerical Linear Algebra with Applications",
year = "2004",
volume = "11",
pages = "261 - 277",
url = "http://www3.interscience.wiley.com/cgi-bin/abstract/107632540/ABSTRACT"
}
%
%

%
% src="images/brain.jpg">

@article{
ogdb2004,
author = "A.A. Oberai and N.H. Gokhale and M.M. Doyley and J.C.Bamber",
title = "Evaluation of the Adjoint Equation Based Algorithm for Elasticity Imaging",
journal = "Physics in Medicine and Biology",
year = "2004",
volume = "49",
pages = "2955--2947"
}
@INPROCEEDINGS{majumdar11,
AUTHOR = "A. Majumdar and A. Birnbaum and D. Choi and A. Trivedi and S. K. Warfield and K. Baldridge and P. Krysl",
TITLE = "A Dynamic Data Driven Grid System for Intra-Operative Image Guided Neurosurgery",
BOOKTITLE = "ICCS 2005",
PAGES = "672--679",
editor = "V.S. Sunderam et al.",
YEAR = "2005"
}
@CONFERENCE{sermesant-etal:03,
AUTHOR = {Sermesant, M. and Clatz, O. and Li, Z. and Lanteri, S. and Delingette, H. and Ayache, H.},
TITLE = {A parallel implementation of non-rigid registration using a volumetric biomechanical model},
BOOKTITLE = {Second International Workshop on Biomedical Image Registration {WBIR'03}},
ADDRESS = {Philadelphia, PA, USA},
PUBLISHER = {Springer-Verlag},
EDITOR = {Gee, J.C. and Maintz, J.B.A. and Vannier, M.W.},
SERIES = {Lecture Notes in Computer Science},
VOLUME = {2717},
PAGES = {398-407},
DATE = {june 23-24},
YEAR = {2003},
url = {ftp://ftp-sop.inria.fr/epidaure/Publications/Sermesant/WBIR2003Sermesant.pdf}
}
@CONFERENCE{sermesant-etal:04,
AUTHOR = {J. Rexilius and S.K. Warfield and C.R.G. Guttmann and X. Wei and R. Benson and L. Wolfson and M. Shenton and H. Handels and R. Kikinis},
TITLE = {A Novel Nonrigid Registration Algorithm And Applications},
BOOKTITLE = {Medical Image Computing and Computer-Assisted Intervention - MICCAI 2001},
ADDRESS = {Philadelphia, PA, USA},
PUBLISHER = {Springer-Verlag},
EDITOR = {Gee, J.C. and Maintz, J.B.A. and Vannier, M.W.},
SERIES = {Lecture Notes in Computer Science},
VOLUME = {2208},
PAGES = {923},
YEAR = {2003},
url = {http://www.springerlink.com/app/home/contribution.asp?wasp=6pgwnvthup0amt7g9j4k&referrer=parent&backto=issue,105,251;journal,1191,1949;linkingpublicationresults,1:105633,1}
}
@article{warfield-haker-talos-05,
author = "Simon K. Warfield and Steven J. Haker and Ion-Florin Talos and Corey A. Kemper and Neil Weisenfeld and Andrea U.J. Mewes and Daniel Goldberg-Zimring and Kelly H. Zou and Carl-Fredrik Westin and William M. Wells and Clare M.C. Tempany and Alexandra Golby and Peter M. Black and Ferenc A. Jolesz and Ron Kikinis",
title = "Capturing intraoperative deformations: research experience at Brigham and Women's hospital",
journal = "Medical Image Analysis",
url = "http://splweb.bwh.harvard.edu:8000/pages/papers/warfield/capturing-intraoperative-deformations-MIA2005.pdf",
year = "2005"
}
@article{brain3,
author = "Simon K. Warfield and Florin Talos and Alida Tei and Arya Nabavi and Matthieu Ferrant and Peter McL. Black and Ferenc A. Jolesz and Ron Kikinis",
title = "Real-Time Registration of Volumetic Brain {MRI} by Biomechanical Simulation of Deformation during Image Guided Neurosurgery",
journal = "Computing and Visualization in Science",
url = "http://splweb.bwh.harvard.edu:8000/pages/ppl/warfield/papers/2002/warfield-2002-cvs-appeared.pdf",
year = "2002"
}
@article{brain2,
author = "Matthieu Ferrant and Arya Nabavi and Benoit Macq and Ferenc A. Jolesz and Ron Kikinis and Simon K. Warfield",
title = "Registration of {3D} Intraoperative {MR} Images of the Brain using a Finite Element Biomechanical Model",
journal = "IEEE Transactions on Medical Imaging",
url = "http://splweb.bwh.harvard.edu:8000/pages/papers/ferrant/tmi2001.pdf",
year = "2001"
}
@inproceedings{brain1,
author = "Simon K. Warfield and Matthieu Ferrant and Xavier Gallez and Arya Nabavi and Ferenc A. Jolesz and Ron Kikinis",
title = "Real-Time Biomechanical Simulation of Volumetric Brain Deformation for Image Guided Neurosurgery",
booktitle = "Proceedings of SC2000",
url = "http://www.sc2000.org/techpapr/papers/pap.pap230.pdf",
year = 2000
}
@article{Vanne06,
author = "V. Kolehmainen and A. Vanne and S. Siltanen and S. Jarvenpaa and J.P. Kaipio and M. Lassas and M. Kalke",
title = "Parallelized Bayesian inversion for three-dimensional dental X-ray imaging",
journal = "IEEE Transactions on Medical Imaging",
volume = "25",
number = "2",
month = "February",
year = "2006",
pages = "218--228"
}
%
%

Fusion


%
@article{
Zhu2006,
author = "P. Zhu and A. Bhattacharjee and K. Germaschewski",
title = "Intermediate nonlinear evolution of the Parker instability: Formation of convection-induced discontinuities and absence of finite-time singularities",
journal = "Phys. Rev. Lett.",
volume = "96",
number = "065001",
year = "2006",
note = "doi:10.1103/PhysRevLett.96.065001"
}
@InProceedings{ppc2005,
author = "B. Philip and M. Pernice and L.Chacon",
title = "Solution of Reduced Resistive Magnetohydrodynamics using Implicit Adaptive Mesh Refinement",
booktitle = "Proceedings of the 16th International Conference on Domain Decomposition methods",
year = "2005",
Lab = {LANL}
}
@article{PP2005,
author = "M. Pernice and B. Philip",
title = "Solution of Equilibrium Radiation Diffusion Problems using Adaptive Mesh Refinement",
year = "2005",
journal = "SIAM J. of Sci. Comput.",
Lab = {LANL}
}
@article{GT2004,
author = "A. H. Glasser and X. Z. Tang",
title = "The SEL macroscopic modeling code",
year = "2004",
journal = "Computer Physics Communications",
pages = "237--243",
volume = "164",
Lab = {LANL}
}
@article{NL2006,
author = "Y. Nishimura and Z.Lin",
title = "A finite element mesh in a tokamak edge geometry",
year = "2006",
journal = "Contributions to Plasma Physics",
volume = 22,
Lab = {PPPL}
}
@article{NLLE2004,
author = "Y. Nishimura and Z.Lin and J.Lewandowski and S.Ethier",
title = "A finite element Poisson solver for gyrokinetic particle simulations in a global field aligned mesh",
year = "2006",
journal = "J. Comput. Phys.",
volume = 214,
pages = "657",
Lab = {PPPL}
}
@InProceedings{lnlle2004,
author = "J.L.V Lewandowski and Y.Nishimura and W.W.Lee and Z.Lin and S. Ethier",
title = "Global gyrokinetic Particle-in-cell Simulations with Trapped Electrons",
booktitle = "Sherwood Fusion Theory Conference, Missoula, MT",
year = "2004",
url = "http://www.sherwoodtheory.org/sherwood04/program/1e15.pdf",
Lab = {PPPL}
}
@InProceedings{NLCLEW2004,
author = "Y. Nishimura and Z.Lin and L.Chen and J.Lewandowski and S.Ethier and W. Wang",
title = "Electromagnetic gyrokinetic simulation with a fluid-kinetic hybrid electron model",
booktitle = "Sherwood Fusion Theory Conference, Missoula, MT",
year = "2004",
url = "http://www.sherwoodtheory.org/sherwood04/program/1C32.pdf",
Lab = {PPPL}
}
@Article{tb1,
author = "X.~Z.~Tang and A.~H.~Boozer",
title = "Numerical studies of a steady state axisymmetric co-axial helicity injection plasma",
journal = "Physics of Plasmas",
year = "2004",
pages = "171--185",
volume = "11",
Lab = {LANL}
}
@Unpublished{nlcw,
title = {Inclusion of electromagnetic effects into gyrokinetic particle simulations},
author = {Y. Nishimura and Z.Lin and L.Chen and W. Wang},
note = {American Physical Society 45th Annual Meeting Division of Plasma Physics, Albuquerque, New Mexico, October 2003},
year = "2003"
}
@techreport{tang2001,
Author = "X. Z. Tang and G. Y. Fu and S. C. Jardin and L. L. Lowe and W. Park and H. R. Strauss",
TITLE = "Resistive Magnetohydrodynamics Simulation of Fusion Plasmas",
year = 2001,
INSTITUTION = "Princeton Plasma Physics Laboratory",
number = "PPPL-3532",
URL = "http://www.pppl.gov/pub_report/2001/PPPL-3532.pdf",
note = "Presented at 10th Society for Industrial and Applied Mathematics (SIAM) Conference on Parallel Processing for Scientific Computing, Portsmouth, Virginia, March 12-14, 2001.",
Lab = {PPPL}
}
%
%

Geosciences


%
@Article{
katz2006,
author = {Richard F. Katz and Marc Spiegelman and Benjamin Holtzman},
title = {The dynamics of melt and shear localization in partially molten aggregates},
journal = {Nature},
year = {2006},
volume = {442},
pages = {676--679},
month = {August},
day = {10},
url = {http://www.nature.com/nature/journal/v442/n7103/abs/nature05039.html}
}
@InProceedings{mqrs2003,
author = "Roland Masson and Philippe Quandalle and Stephane Requena and Robert Scheichl",
year = "2003",
title = "Parallel Preconditioning for Sedimentary Basin Simulations",
booktitle = "Large-Scale Scientific Computing: 4th International Conference, LSSC 2003, Sozopol, Bulgaria, June 4-8, 2003"
}
@InProceedings{lichtner1,
author = "Chuan Lu and Peter C. Lichtner",
year = "2005",
title = "{PFLOTRAN}: Massively Parallel {3-D} Simulator for {CO2} Sequestration in Geologic Media",
booktitle = "Fourth Annual Conference on Carbon Capture and Sequestration DOE/NETL",
Lab = {LANL}
}
@Article{smw2003,
author = {R. Scheichl and R. Masson and J. Wendebourg},
title = {Decoupling and Block Preconditioning for Sedimentary Basin Simulations},
journal = {Computational Geosciences},
year = {2003},
volume = {7},
pages = {295--318},
url = {http://www.maths.bath.ac.uk/MATHEMATICS/preprints.html}
}
@Article{kees-miller-03,
author = {C. E. Kees and C.T. Miller and E.W. Jenkins and C.T. Kelley},
title = {Versatile multilevel Schwarz preconditioners for multiphase flow},
journal = {Computational Geosciences},
year = {2003},
volume = {7},
pages = {91--114}
}
@Article{bk2003,
author = {JN Buur and T Kuehnel},
title = {Improving depth imaging by automated model updating},
journal = {The Leading Edge},
year = {2003},
volume = {22},
pages = {310-318}
}
%

%
%Simulation of the earth's mantle and crust is valuable to
%understanding earthquakes, volcanos, etc. PETSc has been used for a
%variety of these simulations.


%

%
@InProceedings{appelbe1,
author = "B. Appelbe and D. May and S. Quenette and S. Tang and F. Wang and L. Moresi",
year = "2003",
title = "Mantle convection modeling with viscoelastic/brittle lithosphere: Numerical and computational methodology",
page = "781",
booktitle = "Lecture Notes in Computer Science, volume 2659, part of the ICCS Conference Proceedings",
publisher = "Springer-Verlag",
URL = "http://vpac.org/VDT/SNARK/Presentations/RD0201-paper-20030602-ICCS03_ACES03_LNCS-mantle_convection_modelling.pdf"
}
%
@InProceedings{
gd1,
Author = "Guillaume Dumont and Michel Kern",
TITLE = "Parallelization of a 3D Seismic Migration Code with PETSc",
year = 1999,
booktitle = "Proceedings of the Ninth SIAM Conference on Parallel Processing for Scientific Computing"
}
%
       
%        


%
% Figures from the work of Richard Katz
@PhdThesis{KatzThesis,
author = {R.F. Katz},
title = {The deep roots of volcanoes: models of magma dynamics with applications to subduction zones},
school = {Columbia University},
year = {2005},
url = {http://www.ldeo.columbia.edu/\~{ }katz/thesis/Katz_Dissertation_Columbia05.pdf}
}
@InBook{KnepleyKatzSmith04,
author = {Matthew~G. Knepley and Richard~F. Katz and Barry~F. Smith},
editor = {A.~M. Bruaset and P. Bjorstad and A. Tveito},
title = {Numerical Solution of Partial Differential Equations},
chapter = {Developing a Geodynamics Simulation with PETSc},
publisher = {Springer-Verlag},
year = {2004}
}
@Article{Katz04,
author = {Richard F. Katz and Marc Spiegelman and S.M. Carbotte},
title = {Ridge migration, asthenospheric flow and the origin of magmatic segmentation in the global mid-ocean ridge system},
journal = {Geophys.\ Res.\ Letts.},
year = {2004},
volume = {31},
pages = {L15605},
}
@Article{Katz07,
author = {Richard F. Katz and Matthew G. Knepley and Barry Smith and Marc Spiegelman and Ethan Coon},
title = {Numerical simulation of geodynamic processes with the Portable Extensible Toolkit for Scientific Computation},
journal = {Phys. Earth Planet. In.},
year = {2007}
}
@Article{GoversWortel05,
author = {R. Govers and M.J.R. Wortel},
title = {Lithosphere tearing at STEP faults: response to edges of subduction zones},
journal = {Earth and Planetary Science Letters},
volume = {236/1-2},
pages = {505-523},
year = {2005},
}
@InProceedings{snark2,
author = "B. Appelbe and D. May and S. Quenette and S. Tang and F. Wang and L. Moresi",
year = "2002",
title = "Towards Rapid Geoscience Model Development - The {Snark} Project",
booktitle = "Proceedings of 3rd ACES (APEC Cooperation for Earthquake Simulation) Workshop"
}
@Article{snark1,
author = "Bill Appelbe and David May and Louis Moresi and Steve Quenette and Siew-Chiang Tan and Feng Wang",
title = "Snark - A Reusable Framwork for Geoscience Computational Models",
journal = "Submitted to Pure and Applied Geosciences"
}
@InProceedings{earthquake2003,
author = "Volkan Akcelik and Jacobo Bielak and George Biros and Ioannis Epanomeritakis and Antonio Fernandez Omar Ghattas and Eui Joong Kim and David O'Hallaron and Tiankai Tu",
year = "2003",
title = "High Resolution Forward and Inverse Earthquake Modeling on Terascale Computers",
booktitle = "Proceedings of SC2003",
note = "A winner of the Gordon Bell Prize for special achievement at SC2003"
}
%

%
% src="images/ocean.jpg">


@article{khatiwala07,
author = "Khatiwala, S.",
title = "A computational framework for simulation of biogeochemical tracers in the ocean",
journal = "Glob. Biogeochem. Cycles",
volume = "21",
doi = "doi:10.1029/2007GB002923",
year = 2007,
url = " http://www.ldeo.columbia.edu/\~{ }spk/Papers/KhatiwalaMatrixBiogeochemGBC07.pdf"
}
@Article{dks2004,
author = "Sergey Danilov, Gennady Kivman and Jens Schroeter",
journal = "Ocean Modelling",
year = "2004",
volume = "6(2)",
pages = "125-150",
title = "A finite-element Ocean Model: Principles and Evaluation",
url = "http://www.sciencedirect.com/science?_ob=IssueURL&_tockey=%23TOC%236214%232004%23999939997%231%23FLA%23Volume_6,_Issue_2,_Pages_101-190_(2004)&_auth=y&view=c&_acct=C000007278&_version=1&_urlVersion=0&_userid=97338&md5=c3a50a31c599d8d38c8ce1f29117f267"
}
@Article{danilov1,
author = {S. Danilov and G. Kivman and J. Schroter},
year = 2004,
title = {Evaluation of an eddy-permitting finite-element ocean model in the North Atlantic},
journal = {Ocean Modelling}
}
@Article{nerger1,
author = {L. Nerger and S. Danilov and G. Kivman and W. Hiller and J. Schroter},
year = 2004,
title = {Data Assimilation with the Ensemble Kalman Filter and the SEIK Filter applied to a Finite Element Model of the North Atlantic},
journal = {Journal of marine systems},
}
@Article{lauter3,
author = {M. Lauter},
year = 2004,
title = {GrossrAumige Zirkulationsstrukturen in einem nichtlinearen adaptiven AtmosphArenmodell},
journal = {Berichte zur Polar- und Meeresforschung},
}
@Article{lauter2,
author = {M. Lauter and D. Handorf and K. Dethloff},
year = 2004,
title = {Unsteady analytical solutions of the spherical shallow water equations},
journal = {Journal of computational physics}
}
@PhdThesis{lauter1,
author = {M. Lauter},
year = 2004,
title = {GrossAumige Zirkulationsstrukturen in einem nichtlinearen adaptiven AtmosphArenmodell},
institution = {UniversitAt Potsdam, 134 P., UniversitAt Potsdam}
}
@Article{frickenhaus1,
author = {S. Frickenhaus and W. Hiller and M. Best},
year = 2005,
title = {FoSSI : The Family of Simplified Solver Interfaces for the rapid development of parallel numerical atmosphere and ocean models},
journal = {Ocean Modelling},
volume = {10},
pages = {185--191}
}
%
%

Environmental/Subsurface Flow


%
%

%
%Modeling surface flow of water is valuable for both flood control and
%agricultural and environmental reasons. For example, regenerating the
%Florida Everglades requires extensive understanding of the surface water
%characteristics over thousands of square miles. PETSc has been used
%for a variety of these simulations.


%

%
@Unpublished{
stomp,
title = "STOMP (Subsurface Transport Over Multiple Phases) webpage",
url = "http://stomp.pnl.gov/"
}
@INPROCEEDINGS{htfc2003,
AUTHOR = "L. Hluchy and V.D. Tran and D.Froehlich and W.Castaings",
TITLE = "Methods and Experiences For Parallelizing Flood Models",
YEAR = "2003",
BOOKTITLE = "Recent Advances in Parallel Virtual Machine and Message Passing Interface: 10th European PVM/MPI User's Group Meeting",
NOTE = "Springer Lecture Notes in Computer Science, Volume 2840",
URL = "http://www.springerlink.com/app/home/contribution.asp?wasp=2e9afcba8f614cd9a6f94a5294d1cbb0&referrer=parent&backto=issue,93,95;journal,588,1972;linkingpublicationresults,1:105633,1"
}
@inproceedings{hulchy-tran-astalos-fmsip,
AUTHOR = "L. Hluchy and V.D. Tran and J. Astalos and M. Dobrucky and G. T. Nguyen and D.Froehlich",
TITLE = "Flood Modeling System and Its Parallelization",
YEAR = "2002",
BOOKTITLE = "Proceedings of the International Conference on Parallel Computing in Electrical Engineering",
URL = "http://portal.acm.org/citation.cfm?id=824476.825951"
}
@inproceedings{gy1,
AUTHOR = "J. P. Gwo and G. T. Yeh",
TITLE = "High-Performance Simulation of Surface-Subsurface Coupled Flow and Reactive Transport at Watershed Scale",
YEAR = "2004",
BOOKTITLE = "The International Conference on Computational Methods",
URL = "http://www.sfwmd.gov/org/era/uncertainty_wkshp/GwoYeh.pdf"
}
@Unpublished{sfrsm,
title = "The South Florida Regional Simulation Model and Hydrologic Simulation Engine",
url = "http://www.sfwmd.gov/org/pld/hsm/cerp_pres/hse_num.pdf",
note = "Simulates overland, groundwater and canal flows for south Florida. Uses PETSc for its linear solves"
}
%

@inproceedings{Bart_Omar:SC05,
AUTHOR = {Volkan Ak{\c c}elik and George Biros and Andrei Dr{\u{a}}g{\u{a}}nescu and Omar Ghattas and Judith~C. Hill and Gart~G. van Bloemen Waanders},
TITLE = {Dynamic data driven inversion for terascale simulations: real-time indentification of airborne contaminants},
BOOKTITLE = {Proceedings of SC2005},
ORGANIZATION = {IEEE/ACM},
ADDRESS = {Seattle, WA},
YEAR = {2005},
MONTH = {November},
url = "http://www.cs.cmu.edu/\~{ }oghattas/papers/sc05-inverse.pdf",
Lab = "SNL"
}
@InProceedings{anton-krassimir-lscc,
Author = {Anton Antonov and Krassimir Georgiev and Emilia Komsalova and Zahari Zlatev},
TITLE = "Comparison of Two Local Refinement Methods for Large Scale Air Pollution Simulations",
booktitle = "Large-Scale Scientific Computing: 4th International Conference, LSSC 2003",
volume = "2907",
year = 2003,
publisher = "Springer-Verlag",
url = "http://www.springerlink.com/app/home/contribution.asp?wasp=65dfaebc36f6453d9120b8f9f86fecc5&referrer=parent&backto=issue,32,55;journal,618,2072;linkingpublicationresults,1:105633,1"
}
@INPROCEEDINGS{aa2001,
AUTHOR = "Anton Antonov",
TITLE = "Object-Oriented Framework for Large Scale Air Pollution Modeling",
YEAR = "2001",
BOOKTITLE = "Large-Scale Scientific Computing : Third International Conference, LSSC 2001, Sozopol, Bulgaria",
NOTE = "Springer Lecture Notes in Computer Science, Volume 2179",
URL = "http://www.springerlink.com/app/home/contribution.asp?wasp=3699c48fdb764bc7a3aa0539c7bf9f1d&referrer=parent&backto=issue,25,52;journal,1243,1972;linkingpublicationresults,1:105633,1"
}
%

@Article{grassley-simmons-kercher-00,
author = {William E. Glassley and Ardyth M. Simmons and James R. Kercher},
year = 2000,
title = {Mineralogical heterogeneity in fractured, porous media and its representation in reactive transport models},
journal = {Applied Geochemistry},
volume = {17},
pages = {699--708},
Lab = {LLNL}
}
@Article{glassey-nitao-03,
author = {William E. Glassley and John J. Nitao and Charles W. Grant and James W. Johnson and Carl I. Steefel and James R. Kercher},
year = 2003,
title = {The impact of climate change on vadose zone pore waters and its implication for long-term monitoring},
journal = {Computers and Geosciences},
volume = {29},
pages = {399-411},
Lab = {LLNL}
}
@Article{steefel-depaolo-lichtner-05,
author = {Carl I. Steefel and Donald J. DePaolo and Peter C. Lichtner},
year = 2005,
title = {Reactive transport modeling: An essential tool and a new research approach for the Earth sciences},
journal = {Earth and Planetary Science Letters},
Lab = {LLNL,LANL}
}
%
%

%
% src="images/scalinglarge.jpg">


%
% Sample strong scaling for the LANL PFLOTRAN flow and geochemical transport suite. (Courtesy of Richard Mills, ORNL)
@Unpublished{
hvl2002,
title = {Numerical Modeling of NAPL Source Zone Treatment},
author = {Hammond, G.E., A.J. Valocchi and P.C. Lichtner},
note = {Poster at American Geophysical Union Fall 2002 Meeting, San Francisco, CA.},
url = {http://cee.uiuc.edu/transport/hammond/agu_2002.pdf},
year = "2002",
Lab = {LANL}
}
@phdthesis{hammond2003,
author = {Glenn E. Hammond},
title = "Innovative Methods for Solving Multicomponent Biogeochemical Groundwater Transport on Supercomputers",
school = {University of Illinois at Urbana-Champaign},
year = 2003,
url = {http://cee.uiuc.edu/transport/hammond/dissertation.pdf}
}
@Unpublished{uk,
title = "Parallel Least-Squares Finite Element Method for Large Eddy Simulation of Large Scale Environmental Flows and Transport Processes",
url = "http://es.epa.gov/ncer/progress/grants/96/high/tsang99.html",
note = "EPA funded work to simulate turbulent dispersion of toxic chemicals around buildings and in Green Bay. Used PETSc for its linear solvers",
year = 1999
}
@inproceedings{hammond2002,
Author = "Glenn E. Hammond and Albert J. Valocchi and Peter C. Lichtner",
TITLE = "Modeling Multicomponent Reactive Transport on Parallel Computers Using {J}acobian-Free {N}ewton {K}rylov with Operator-Split Preconditioners",
year = 2002,
URL = "http://www.cee.uiuc.edu/transport/publications/hammond/CMWR_2002.pdf",
booktitle = "Proceedings of the XIV International Conference on Computational Methods in Water Resources, Delft, The Netherlands.",
Lab = {LANL}
}
@techreport{steefel1,
Author = "C. I. Steefel",
TITLE = "Software for modeling multicomponent, multidimensional reactive transport",
year = 2001,
INSTITUTION = "Lawrence Livermore National Laboratory",
number = "UCRL-MA-143182",
Lab = {LLNL}
}
@ARTICLE{steefel2,
author = {C. I. Steefel and A. C. Lasaga},
title = "A coupled model for transport of multiple chemical-species and kinetic precipitation dissolution reactions with application to reactive flow in single-phase hydrothermal systems",
journal = {Americal Journal of Science},
year = 1994,
pages = {529-592},
volume = 294,
number = 5
}
@techreport{steefel3,
Author = "C. I. Steefel and S. B. Yabusaki",
TITLE = "OS3D/GIMRT, Software for Multicomponent-Multidimensional reactive transport: User's manual and programmer's guide",
year = 1996,
INSTITUTION = "Pacific Northwest National Laboratory",
number = "PNNL-11166",
Lab = {PNNL}
}
@ARTICLE{2005hvl,
author = {G. E. Hammond and A.J. Valocchi and P.C. Lichtner},
title = "Application of {J}acobian-free {N}ewton-{K}rylov with physics-based preconditioning to biogeochemical transport",
journal = {Advances in Water Resources},
year = 2005,
pages = {359--376},
volume = 28,
url = { http://www.sciencedirect.com/science?_ob=IssueURL&_tockey=%23TOC%235953%232005%23999719995%23576651%23FLA%23Volume_28,_Issue_4,_Pages_315-427_(April_2005)&_auth=y&view=c&_acct=C000059129&_version=1&_urlVersion=0&_userid=2914253&md5=0d485527443c6192356cc508e1621002},
Lab = {LANL}
}
@article{wang-zabar-05,
author = "J Wang and N Zabaras",
journal = "Int. J. Heat and Mass Transfer",
title = "A Markov random field model of contamination source identification in porous media flow",
year = 2005
}
@InBook{kp1,
author = "Jong G. Kim and Hyoung W. Park",
chapter = "Advanced Simulation Technique for Modeling Multiphase Fluid Flow in Porous Media",
url = "http://www.springerlink.com/app/home/contribution.asp?wasp=m5uc84pqrh1qrg8clyuh&referrer=parent&backto=issue,1,117;journal,206,1787;linkingpublicationresults,1:105633,1",
title = "Lecture Notes in Computer Science",
publisher = "Springer-Verlag",
volume = 3044,
year = 2004
}
@ARTICLE{2001AGUSM...H32A06K,
author = {{Kim}, J.~G. and {Kim}, J.},
title = {Parallel Implementation of Finite Element Groundwater Flow Model},
journal = {AGU Spring Meeting Abstracts},
year = 2001,
pages = {32-+},
}
@ARTICLE{lzb2005,
author = {A. M. Wasantha Lal and Randy Van Zee and Mark Belnap},
title = "CASE STUDY: A MODEL TO SIMULATE REGIONAL FLOW IN SOUTH FLORIDA",
journal = {Journal of Hydraulic Engineering},
year = 2005,
volume = 131,
number = 4,
pages = {247--258}
}
@ARTICLE{Rao2005,
author = {Prasada Rao},
title = "A parallel RMA2 model for simulating large-scale free surface flows",
journal = {Environmental Modelling and Software},
year = 2005,
pages = {47--53},
}
@INPROCEEDINGS{pr1,
AUTHOR = "Prasada Rao",
TITLE = "An Efficient Scalable Finite Element Model for Simulating Large Scale Hydrodynamic Flows",
YEAR = "2003",
BOOKTITLE = "Proceedings of the American Society of Civil Engineers 16th Engineering Mechanics Conference",
URL = "http://www.ce.washington.edu/em03/proceedings/papers/477.pdf"
}
@INPROCEEDINGS{lichtner2004,
AUTHOR = "Peter C. Lichtner and Andrew Wolfsberg",
TITLE = "Modeling Thermal-Hydrological-Chemical ({THC}) Coupled Processes with Applications to Underground Nuclear Tests at the Nevada Test Site; A Grand Challenge Supercomputing Problem",
YEAR = "2004",
BOOKTITLE = "MPU Workshop: Conceptual Model Development for Subsurface Reactive Transport Modeling of Inorganic Contaminants, Radionuclides and Nutrients",
note = "Also Los Alamos National Laboratory report: LA-UR-04-1826",
Lab = {LANL}
}
%

@Article{aba01:petsc-app,
author = {Jason Abate and Peng Wang and Kamy Sepehrnoori},
title = {Parallel Compositional Reservior Simulation on Clusters of {PC}s},
journal = "Int. J. High Performance Computing Applications",
year = 2001,
volume = 15,
number = 1,
pages = {13--21},
month = {Spring},
}
@PhdThesis{tjb200,
author = {Thomas James Byer},
title = {Preconditioned Newton Methods for Simulation of Reservoirs with Surface Facilities},
school = {Stanford},
year = 2000
}
@InProceedings{puchyr2006,
author = {Peter J. Puchyr},
title = {Experience with Parallel Computing for Reservoir and Geomechanics Simulation on a Win32 Cluster},
booktitle = {Proceedings of the Canadian International Petroleum Conference},
note = {Paper number CIPC2006-207},
year = {2006}
}
@InProceedings{texas98,
author = {P. Wang and S. Balay and K. Seperhrnoori and J. Wheeler and J. Abate and B. Smith and G. A. Pope},
title = {A Fully Implicit Parallel {EOS} Compositional Simulator for Large Scale Reservoir Simulation},
booktitle = {Proceedings of the 1999 Society of Petroleum Engineers 15th Reservoir Simulation Symposium},
note = "also available as Argonne preprint ANL/MCS-P743-1298",
url = "ftp://info.mcs.anl.gov/pub/tech_reports/reports/P743.pdf",
year = {1998}
}
%
%

CFD


%
@PhdThesis{
a2008,
author = {A. Cubero},
title = {a parallel coupled algorithm for collocated grids and its application to Large Eddy Simulation of a turbulent wake},
school = {University of Zaragoza (Spain)},
year = 2008
}
@Article{af2007,
Author = {A. Cubero and N. Fueyo},
TITLE = "A Compact Momentum Interpolation Method for unsteady flows and relaxation",
journal = "Numerical Heat Transfer, part B-Fundamentals",
volume = 56,
number = 6,
pages = "507--529",
year = 2007,
url = {http://www.informaworld.com/smpp/content~content=a782025305~db=all~order=page}
}
@TechReport{af2007,
title = "Preconditioning based on a partially implicit implementation of Momentum Interpolation for coupled solvers",
institution = "Fluid Mechanics Group of the University of Zaragoza (Spain)",
year = "2007",
author = "A. Cubero and N. Fueyo"
}
@InCollection{Dwight2004,
author = {Richard Dwight},
title = {Robust Mesh Deformation using the Linear Elasticity Equations},
booktitle = {Computational Fluid Dynamics 2006},
editor = {H. Deconinck and E. Dick},
publisher = {Springer},
year = 2006,
url = {http://www.maths.man.ac.uk/\~{ }rdwight/pub/rdwight-ICCFD4-LinElastDeformation-2006.pdf}
}
@InProceedings{Dwight2006,
author = {Richard Dwight and Joel Brezillon},
title = {Effect of Various Approximations of the Discrete Adjoint on Gradient-Based Optimization},
booktitle = {Proceedings of the 44th AIAA Aerospace Sciences Meeting and Exhibit, Reno NV. AIAA-2006-0690},
year = 2006,
url = {http://www.maths.man.ac.uk/\~{ }rdwight/pub/rdwight-AIAAReno-ApproxAdjoint.pdf}
}
@PhdThesis{Dwight2006a,
author = {Richard Dwight},
title = {Efficiency Improvements of {RANS}-Based Analysis and Optimization using Implicit and Adjoint Methods on Unstructured Grids},
school = {School of Mathematics, University of Manchester},
year = 2006,
url = {http://www.maths.man.ac.uk/\~{ }rdwight/pub/rdwight-PhDThesis-ImplicitAndAdjoint.pdf}
}
@InProceedings{lhdfrh,
Author = {M. Lauter and D. Handorf and K. Dethloff and S. Frickenhaus and N. Rakowsky and W. Hiller},
TITLE = "An adaptive Lagrange-Galerkin shallow-water model on the sphere",
booktitle = "Workshop Proceedings Current Development in Shallow Water Models on the SphereMarch, 10-14, 2003, Munich University of Technology, German",
year = 2003
}
@InProceedings{brios-ying-2002,
Author = {George Biros and Lexing Ying and Denis Zorin},
TITLE = "The Embedded Boundary Integral Method (EBI) for the Incompressible Navier-Stokes equations",
booktitle = "IABEM 2002, International Association for Boundary Element Methods, UT Austin",
year = 2002
}
@InProceedings{mohsen-straatman-ins,
Author = {S.A. Mohsen Karimian and Anthony G. Straatman},
TITLE = "Benchmarking of a 3D, unstructured, finite volume code for incompressible Navier-Stokes equation on a cluster of distributed-memory computers",
booktitle = "Proceedings of the 19th International Symposium on High Performance Computing Systems and Applications",
pages = "11--16",
year = 2005,
url = { http://ieeexplore.ieee.org/search/wrapper.jsp?arnumber=1430046}
}
@TechReport{bonglioli-icnmfd98,
title = "Multidimensional Residual Distribution Schemes for the Pseudo-Compressible Euler and Navier-Stokes equations on Unstructured Meshes",
institution = "Universita della Basilicata via della Tecnica 3",
year = "1996",
author = "A. Bonglioli",
url = "http://www.unibas.it/utenti/bonfiglioli/icnmfd98.ps.gz"
}
@Article{deng-piquet-ctf,
Author = {G. B. Deng and J. Piquet and X. Vasseur and M. Visonneau"},
TITLE = "A new fully coupled method for computing turbulent flows",
journal = "Computers and Fluids",
volume = 30,
pages = "445--472",
year = 2001
}
@InProceedings{garbey1,
Author = {M. Garbey and B. Hadri and W. Shyy.},
TITLE = "Fast Elliptic Solver for Incompressible Navier Stokes Flow and Heat Transfer Problems on the Grid",
booktitle = "Aerospace Sciences Meeting and Exhibit",
note = "Paper No. 2005-1386",
year = 2005
}
@Article{pctw2004,
Author = {M. S. Politano and P. M. Carrica and C. Turan and L. Weber},
TITLE = "A Multidimensional Two-Phase Flow Model for the Total Dissolved Gas Downstream of Spillways",
journal = "Journal of Hydraulic Research",
note = {accepted for publication},
year = 2004
}
@Article{wcs2004,
Author = {R. V. Wilson and P. M. Carrica and F. Stern},
TITLE = "Unsteady RANS Method for Ship Motions with Application to Roll for a Surface Combatant",
journal = "Computers and Fluids",
note = {in press},
year = 2004
}
@Article{cws2005,
Author = {P. M. Carrica and R. V. Wilson and F. Stern},
TITLE = "Unsteady RANS Simulation of the Ship Forward Speed Diffraction Problem",
journal = "Computers and Fluids",
note = {accepted for publication},
year = 2005
}
@MastersThesis{mtj,
Author = {M. T. Jozkowski},
TITLE = "Application of Algebraic Multigrid Methods to the Solution of Stratified Flows About Submerged Bodies",
school = {The Pennsylvania State University},
year = 2005
}
@Article{pp,
Author = {E. G. Paterson and L. J. Peltier},
TITLE =