@inproceedings{WlodarczykNadobnyWustetal.1999, author = {Wlodarczyk, Waldemar and Nadobny, Johanna and Wust, Peter and M{\"o}nich, Gerhard and Deuflhard, Peter and Felix, Roland}, title = {Systematic design of antennas for cylindrical 3D phased array hyperthermia applicator}, series = {Proc. IEEE Antennas Propagat. Soc. Intern. Symposium, July 11-16, 1999, Orlando, FL, USA,}, booktitle = {Proc. IEEE Antennas Propagat. Soc. Intern. Symposium, July 11-16, 1999, Orlando, FL, USA,}, pages = {1004 -- 1007}, year = {1999}, language = {en} } @incollection{WulkowDeuflhard1992, author = {Wulkow, Michael and Deuflhard, Peter}, title = {Towards an Efficient Computational Treatment of Heterogeneous Polymer Reactions}, series = {Computational Ordinary Differential Equations}, booktitle = {Computational Ordinary Differential Equations}, editor = {Fatunla, S.}, publisher = {University Press, Nigeria}, pages = {287 -- 306}, year = {1992}, language = {en} } @article{WustFahlingWlodarczyketal.2001, author = {Wust, Peter and Fahling, Horst and Wlodarczyk, Waldemar and Seebass, Martin and Gellermann, Johanna and Deuflhard, Peter and Nadobny, Johanna}, title = {Antenna arrays in the SIGMA-eye applicator}, series = {Med Phys}, volume = {28}, journal = {Med Phys}, number = {8}, pages = {1793 -- 1805}, year = {2001}, language = {en} } @misc{WustFelixDeuflhard1999, author = {Wust, Peter and Felix, Roland and Deuflhard, Peter}, title = {K{\"u}nstliches Fieber gegen Krebs}, publisher = {Spektrum der Wissenschaft, pp. 78-84 (December 1999).}, year = {1999}, language = {en} } @article{WustGellermannBeieretal.1998, author = {Wust, Peter and Gellermann, Johanna and Beier, J{\"u}rgen and Wegner, S. and Tilly, Wolfgang and Troger, J. and Stalling, Detlev and Oswald, H. and Hege, Hans-Christian and Deuflhard, Peter and Felix, Roland}, title = {Evaluation of segmentation algorithms for generation of patient models in radiofrequency hyperthermia}, series = {Phys Med Biol}, volume = {43}, journal = {Phys Med Biol}, pages = {3295 -- 3307}, year = {1998}, language = {en} } @article{WustNadobnyFelixetal.1989, author = {Wust, Peter and Nadobny, Johanna and Felix, Roland and Deuflhard, Peter and John, W. and Louis, Alfred}, title = {Numerical approaches to treatment planning in deep RF-hyperthermia}, series = {Strahlenther Onkol}, volume = {165}, journal = {Strahlenther Onkol}, number = {10}, pages = {751 -- 757}, year = {1989}, language = {en} } @article{WustNadobnyFelixetal.1991, author = {Wust, Peter and Nadobny, Johanna and Felix, Roland and Deuflhard, Peter and Louis, Alfred and John, W.}, title = {Strategies for optimized application of annular-phased-array systems in clinical hyperthermia}, series = {Int J Hyperthermia}, volume = {7}, journal = {Int J Hyperthermia}, pages = {157 -- 173}, year = {1991}, language = {en} } @inproceedings{WustNadobnyGellermannetal.1997, author = {Wust, Peter and Nadobny, Johanna and Gellermann, Johanna and Seebass, Martin and Stalling, Detlev and Hege, Hans-Christian and Deuflhard, Peter and Budach, Volker and Felix, Roland}, title = {Patient Models and Algorithms for Hyperthermia Planning}, series = {Proc. 16th Ann. Meeting Europ. Soc. Hyperthermic Oncology (ESHO-97), Berlin, Germany, April 1997}, booktitle = {Proc. 16th Ann. Meeting Europ. Soc. Hyperthermic Oncology (ESHO-97), Berlin, Germany, April 1997}, pages = {75}, year = {1997}, language = {en} } @article{SchaberOfenlochEhrigetal.2004, author = {Schaber, Karlheinz and Ofenloch, Oliver and Ehrig, Rainald and Deuflhard, Peter}, title = {Aerosolbildung in Gas/Fl{\"u}ssigkeits-Kontaktapparaten - Modellierungsstrategien und Simulation}, series = {Chemie Ingenieur Technik}, volume = {76}, journal = {Chemie Ingenieur Technik}, number = {9}, pages = {1358 -- 1359}, year = {2004}, language = {en} } @article{SreenivasaGellermannNadobnyetal.2003, author = {Sreenivasa, G. and Gellermann, Johanna and Nadobny, Johanna and Schlag, P. and Deuflhard, Peter and Felix, Roland and Wust, Peter}, title = {Clinical Use of the Hyperthermia Treatment Planning System Hyperplan to Predict Effectiveness and Toxicity}, series = {Int. J. Oncology Biol. Phys.}, volume = {55}, journal = {Int. J. Oncology Biol. Phys.}, number = {2}, pages = {407 -- 419}, year = {2003}, language = {en} } @inproceedings{StallingSeebassHegeetal.1996, author = {Stalling, Detlev and Seebass, Martin and Hege, Hans-Christian and Wust, Peter and Deuflhard, Peter and Felix, Roland}, title = {HyperPlan - an integrated system for treatment planning in regional hyperthermia}, series = {Proc. of the 7th Int. Congress on Hyperthermic Oncology, Rome, Italy, April 1996}, volume = {2}, booktitle = {Proc. of the 7th Int. Congress on Hyperthermic Oncology, Rome, Italy, April 1996}, editor = {Franconi, Cafiero}, pages = {552 -- 554}, year = {1996}, language = {en} } @article{WeberKubeWalteretal.2007, author = {Weber, Marcus and Kube, Susanna and Walter, Lionel and Deuflhard, Peter}, title = {Stable Computation of Probability Densities of Metastable Dynamical Systems}, series = {SIAM J. Multiscale Model. Simul.}, volume = {6}, journal = {SIAM J. Multiscale Model. Simul.}, number = {2}, pages = {396 -- 416}, year = {2007}, language = {en} } @article{WeiserSchielaDeuflhard2005, author = {Weiser, Martin and Schiela, Anton and Deuflhard, Peter}, title = {Asymptotic Mesh Independence of Newton's Method Revisited}, series = {SIAM J. Num. Anal.}, volume = {42}, journal = {SIAM J. Num. Anal.}, number = {5}, pages = {1830 -- 1845}, year = {2005}, language = {en} } @article{WeiserDeuflhardErdmann2007, author = {Weiser, Martin and Deuflhard, Peter and Erdmann, Bodo}, title = {Affine conjugate adaptive Newton methods for nonlinear elastomechanics}, series = {Opt. Meth. Softw.}, volume = {22}, journal = {Opt. Meth. Softw.}, number = {3}, pages = {413 -- 431}, year = {2007}, language = {en} } @article{WixSchaberOfenlochetal.2007, author = {Wix, A. and Schaber, Karlheinz and Ofenloch, O. and Ehrig, Rainald and Deuflhard, Peter}, title = {Simulation of Aerosol Formation in Gas-Liquid Contact Devices}, series = {Chem. Eng. Comm.}, volume = {194}, journal = {Chem. Eng. Comm.}, pages = {565 -- 577}, year = {2007}, language = {en} } @book{DeuflhardRoeblitz, author = {Deuflhard, Peter and R{\"o}blitz, Susanna}, title = {A guide to numerical modelling in systems biology}, volume = {12}, publisher = {Springer}, isbn = {978-3-319-20058-3}, doi = {10.1007/978-3-319-20059-0}, language = {en} } @incollection{DeuflhardDoesselLouisetal.2008, author = {Deuflhard, Peter and D{\"o}ssel, Olaf and Louis, Alfred and Zachow, Stefan}, title = {Mehr Mathematik wagen in der Medizin}, series = {acatech diskutiert, Produktionsfaktor Mathematik - Wie Mathematik Technik und Wirtschaft bewegt}, booktitle = {acatech diskutiert, Produktionsfaktor Mathematik - Wie Mathematik Technik und Wirtschaft bewegt}, publisher = {Springer}, doi = {10.1007/978-3-540-89435-3}, pages = {435 -- 459}, year = {2008}, language = {en} } @incollection{DeuflhardDoesselLouisetal.2010, author = {Deuflhard, Peter and D{\"o}ssel, Olaf and Louis, Alfred and Zachow, Stefan}, title = {More Mathematics into Medicine!}, series = {Production Factor Mathematics}, booktitle = {Production Factor Mathematics}, publisher = {Springer}, pages = {357 -- 378}, year = {2010}, language = {en} } @article{ZachowDeuflhard2008, author = {Zachow, Stefan and Deuflhard, Peter}, title = {Computergest{\"u}tzte Planung in der kraniofazialen Chirurgie}, series = {Face 01/08, Int. Mag. of Orofacial Esthetics}, journal = {Face 01/08, Int. Mag. of Orofacial Esthetics}, publisher = {Oemus Journale Leipzig}, pages = {43 -- 49}, year = {2008}, language = {en} } @article{WeiserZachowDeuflhard2010, author = {Weiser, Martin and Zachow, Stefan and Deuflhard, Peter}, title = {Craniofacial Surgery Planning Based on Virtual Patient Models}, series = {it - Information Technology}, volume = {52}, journal = {it - Information Technology}, number = {5}, publisher = {Oldenbourg Verlagsgruppe}, doi = {10.1524/itit.2010.0600}, pages = {258 -- 263}, year = {2010}, language = {en} } @article{ZachowHegeDeuflhard2006, author = {Zachow, Stefan and Hege, Hans-Christian and Deuflhard, Peter}, title = {Computer assisted planning in cranio-maxillofacial surgery}, series = {Journal of Computing and Information Technology}, volume = {14(1)}, journal = {Journal of Computing and Information Technology}, pages = {53 -- 64}, year = {2006}, language = {en} } @article{DeuflhardRoeblitzStoetzel, author = {Deuflhard, Peter and R{\"o}blitz, Susanna and St{\"o}tzel, Claudia}, title = {Mathematical Systems Biology at Zuse Institute Berlin (ZIB)}, series = {BioTOPics - Journal of Biotechnology in Berlin-Brandenburg}, volume = {39}, journal = {BioTOPics - Journal of Biotechnology in Berlin-Brandenburg}, language = {en} } @misc{DeuflhardWeber, author = {Deuflhard, Peter and Weber, Marcus}, title = {Mathematics without pain}, series = {MATHEON-Mathematics for Key Technologies}, volume = {1}, journal = {MATHEON-Mathematics for Key Technologies}, editor = {Deuflhard, Peter and Gr{\"o}tschel, Martin and H{\"o}mberg, Dietmar and Horst, Ulrich and Kramer, J{\"u}rg and Mehrmann, Volker and Polthier, Konrad and Schmidt, Frank and Skutella, Martin and Sprekels, J{\"u}rgen}, publisher = {European Mathematical Society}, doi = {10.4171/137}, pages = {26 -- 28}, language = {en} } @misc{MoualeuNgangueRoeblitzEhrigetal., author = {Moualeu-Ngangue, Dany Pascal and R{\"o}blitz, Susanna and Ehrig, Rainald and Deuflhard, Peter}, title = {Parameter Identification for a Tuberculosis Model in Cameroon}, issn = {1438-0064}, doi = {10.1371/journal.pone.0120607}, url = {http://nbn-resolving.de/urn:nbn:de:0297-zib-43087}, abstract = {A deterministic model of tuberculosis in sub-Saharan Africa in general and Cameroon in particular including lack of access to the treatment and weak diagnose capacity is designed and analyzed with respect to its transmission dynamics. The model includes both frequency- and density-dependent transmissions. It is shown that the model is mathematically well-posed and epidemiologically reasonable. Solutions are non-negative and bounded whenever the initial values are non-negative. A sensitivity analysis of model parameters is performed and most sensitive parameters of the model are identified using a state-of-the-art Gauss-Newton Method. In particular, parameters representing the proportion of individuals having access to medical facilities have a large impact on the dynamics of the disease. It has been shown that an increase of these parameter values over the time can significantly reduce the disease burden in the population within the next 15 years.}, language = {en} } @misc{MoualeuNgangueWeiserEhrigetal., author = {Moualeu-Ngangue, Dany Pascal and Weiser, Martin and Ehrig, Rainald and Deuflhard, Peter}, title = {Optimal control for a tuberculosis model with undetected cases in Cameroon}, issn = {1438-0064}, url = {http://nbn-resolving.de/urn:nbn:de:0297-zib-43142}, abstract = {This paper considers the optimal control of tuberculosis through education, diagnosis campaign and chemoprophylaxis of latently infected. A mathematical model which includes important components such as undiagnosed infectious, diagnosed infectious, latently infected and lost-sight infectious is formulated. The model combines a frequency dependent and a density dependent force of infection for TB transmission. Through optimal control theory and numerical simulations, a cost-effective balance of two different intervention methods is obtained. Seeking to minimize the amount of money the government spends when tuberculosis remain endemic in the Cameroonian population, Pontryagin's maximum principle is used to characterize the optimal control. The optimality system is derived and solved numerically using the forward-backward sweep method (FBSM). Results provide a framework for designing cost-effective strategies for diseases with multiple intervention methods. It comes out that combining chemoprophylaxis and education, the burden of TB can be reduced by 80 \% in 10 years}, language = {en} } @article{MoualeuNgangueRoeblitzEhrigetal., author = {Moualeu-Ngangue, Dany Pascal and R{\"o}blitz, Susanna and Ehrig, Rainald and Deuflhard, Peter}, title = {Parameter Identification in a Tuberculosis Model for Cameroon}, series = {PLOS ONE}, journal = {PLOS ONE}, doi = {10.1371/journal.pone.0120607}, abstract = {A deterministic model of tuberculosis in Cameroon is designed and analyzed with respect to its transmission dynamics. The model includes lack of access to treatment and weak diagnosis capacity as well as both frequency- and density-dependent transmissions. It is shown that the model is mathematically well-posed and epidemiologically reasonable. Solutions are non-negative and bounded whenever the initial values are non-negative. A sensitivity analysis of model parameters is performed and the most sensitive ones are identified by means of a state-of-the-art Gauss-Newton method. In particular, parameters representing the proportion of individuals having access to medical facilities are seen to have a large impact on the dynamics of the disease. The model predicts that a gradual increase of these parameters could significantly reduce the disease burden on the population within the next 15 years.}, language = {en} } @book{DeuflhardWeiser, author = {Deuflhard, Peter and Weiser, Martin}, title = {Numerische Mathematik 3. Adaptive L{\"o}sung partieller Differentialgleichungen}, edition = {2}, publisher = {de Gruyter}, isbn = {978-3-11-069168-9}, doi = {10.1515/9783110689655}, pages = {456}, language = {de} } @article{Deuflhard, author = {Deuflhard, Peter}, title = {The Grand Four. Affine Invariant Globalizations of Newton's Method}, series = {Vietnam Journal of Mathematics}, volume = {46}, journal = {Vietnam Journal of Mathematics}, number = {4}, doi = {10.1007/s10013-018-0301-3}, pages = {761 -- 777}, language = {en} } @misc{NaegelDeuflhardWittum, author = {N{\"a}gel, Arne and Deuflhard, Peter and Wittum, Gabriel}, title = {Efficient Stiff Integration of Density Driven Flow Problems}, issn = {1438-0064}, url = {http://nbn-resolving.de/urn:nbn:de:0297-zib-70891}, abstract = {The paper investigates the efficient use of a linearly implicit stiff integrator for the numerical solution of density driven flow problems. Upon choosing a one-step method of extrapolation type (code LIMEX), the use of full Jacobians and reduced approximations are discussed. Numerical experiments include nonlinear density flow problems such as diffusion from a salt dome (2D), a (modified) Elder problem (3D), the saltpool benchmark (3D) and a real life salt dome problem (2D). The arising linear equations are solved using either a multigrid preconditioner from the software package UG4 or the sparse matrix solver SuperLU.}, language = {en} } @misc{FranzoneDeuflhardErdmannetal., author = {Franzone, Piero Colli and Deuflhard, Peter and Erdmann, Bodo and Lang, Jens and Pavarino, Luca Franco}, title = {Adaptivity in Space and Time for Reaction-Diffusion Systems in Electrocardiology}, url = {http://nbn-resolving.de/urn:nbn:de:0297-zib-8649}, number = {05-30}, abstract = {Adaptive numerical methods in space and time are introduced and studied for multiscale cardiac reaction-diffusion models in three dimensions. The evolution of a complete heartbeat, from the excitation to the recovery phase, is simulated with both the anisotropic Bidomain and Monodomain models, coupled with either a variant of the simple FitzHugh-Nagumo model or the more complex phase-I Luo-Rudy ionic model. The simulations are performed with the {\sc kardos} library, that employs adaptive finite elements in space and adaptive linearly implicit methods in time. The numerical results show that this adaptive method successfully solves these complex cardiac reaction-diffusion models on three-dimensional domains of moderate sizes. By automatically adapting the spatial meshes and time steps to the proper scales in each phase of the heartbeat, the method accurately resolves the evolution of the intra- and extra-cellular potentials, gating variables and ion concentrations during the excitation, plateau and recovery phases.}, language = {en} } @article{DierkesRoeblitzWadeetal.2013, author = {Dierkes, Thomas and R{\"o}blitz, Susanna and Wade, Moritz and Deuflhard, Peter}, title = {Parameter identification in large kinetic networks with BioPARKIN}, series = {CoRR - Computing Research Repository - arXiv.org}, volume = {abs/1303.4928}, journal = {CoRR - Computing Research Repository - arXiv.org}, year = {2013}, language = {en} } @misc{DeuflhardErdmannRoitzschetal., author = {Deuflhard, Peter and Erdmann, Bodo and Roitzsch, Rainer and Lines, Glenn Terje}, title = {Adaptive Finite Element Simulation of Ventricular Fibrillation Dynamics}, url = {http://nbn-resolving.de/urn:nbn:de:0297-zib-9431}, number = {06-49}, abstract = {The dynamics of ventricular fibrillation caused by irregular excitation is simulated in the frame of the monodomain model with an action potential model due to Aliev-Panfilov for a human 3D geometry. The numerical solution of this multiscale reaction-diffusion problem is attacked by algorithms which are fully adaptive in both space and time (code library {\sc Kardos}). The obtained results clearly demonstrate an accurate resolution of the cardiac potential during the excitation and the plateau phases (in the regular cycle) as well as after a reentrant excitation (in the irregular cycle).}, language = {en} } @misc{DeuflhardHege, author = {Deuflhard, Peter and Hege, Hans-Christian}, title = {Die Vision einer individuellen quantitativen Medizin}, url = {http://nbn-resolving.de/urn:nbn:de:0297-zib-8805}, number = {05-47}, abstract = {Die Autoren schreiben dieses Papier aus der eingeschr{\"a}nkten Sicht der Mathematik und der Informationstechnik. Um den speziellen Beitrag dieser Disziplinen {\"u}berhaupt diskutieren zu k{\"o}nnen, sehen wir uns jedoch gezwungen, einen Rahmen abzustecken, den wir f{\"u}r das Jahr 2020 vorhersehen -- nach Wahrscheinlichkeit und aus unserem engeren fachlichen Blickwinkel. Vorab bitten wir schon einmal bei den medizinischen Fachleuten um Nachsicht, wenn wir uns in ihrem Revier allzu dillettantisch bewegen. Vielleicht f{\"o}rdert aber auch unser eingeschr{\"a}nkter Blickwinkel ansonsten unbedachte Aspekte zutage -- das hoffen wir zumindest.}, language = {de} } @misc{DeuflhardKleinReinefeldetal., author = {Deuflhard, Peter and Klein, Rupert and Reinefeld, Alexander and St{\"u}ben, Hinnerk}, title = {Power-User und Supercomputer}, url = {http://nbn-resolving.de/urn:nbn:de:0297-zib-4070}, number = {SC-99-19}, abstract = {Abstract-Sammlung zum gleichnamigen Workshop am ZIB vom 19.--20. Mai 1999}, language = {de} } @inproceedings{NettesheimSchuette1999, author = {Nettesheim, Peter and Sch{\"u}tte, Christof}, title = {Numerical Integrators for Quantum-Classical Molecular Dynamics}, series = {Computational Molecular Dynamics}, volume = {4}, booktitle = {Computational Molecular Dynamics}, editor = {Deuflhard, Peter and Hermans, J. and Leimkuhler, Benedict and Marks, A. and Reich, Sebastian and Skeel, R.}, publisher = {Springer}, pages = {396 -- 411}, year = {1999}, language = {en} } @inproceedings{SchuetteBornemann1999, author = {Sch{\"u}tte, Christof and Bornemann, Folkmar A.}, title = {Approximation Properties and Limits of the Quantum-Classical Molecular Dynamics Model}, series = {Computational Molecular Dynamics}, volume = {4}, booktitle = {Computational Molecular Dynamics}, editor = {Deuflhard, Peter and Hermans, J. and Leimkuhler, Benedict and Marks, A. and Reich, Sebastian and Skeel, R.}, publisher = {Springer}, pages = {380 -- 395}, year = {1999}, language = {en} } @article{SchuetteFischerHuisingaetal.1999, author = {Sch{\"u}tte, Christof and Fischer, Alexander and Huisinga, Wilhelm and Deuflhard, Peter}, title = {A Direct Approach to Conformational Dynamics based on Hybrid Monte Carlo}, series = {J. Comp. Phys}, volume = {151}, journal = {J. Comp. Phys}, number = {1}, doi = {10.1006/jcph.1999.6231}, pages = {146 -- 168}, year = {1999}, language = {en} } @inproceedings{FischerSchuetteDeuflhardetal.2002, author = {Fischer, Alexander and Sch{\"u}tte, Christof and Deuflhard, Peter and Cordes, Frank}, title = {Hierarchical Uncoupling-Coupling of Metastable Conformations}, series = {Computational Methods for Macromolecules}, volume = {24}, booktitle = {Computational Methods for Macromolecules}, editor = {Schlick, T. and Gan, H.}, publisher = {Springer}, pages = {235 -- 259}, year = {2002}, language = {en} } @article{DeuflhardHuisingaFischeretal.2000, author = {Deuflhard, Peter and Huisinga, Wilhelm and Fischer, Alexander and Sch{\"u}tte, Christof}, title = {Identification of Almost Invariant Aggregates in Reversible Nearly Uncoupled Markov Chains}, series = {Lin. Alg. Appl.}, volume = {315}, journal = {Lin. Alg. Appl.}, number = {1-3}, doi = {10.1016/S0024-3795(00)00095-1}, pages = {39 -- 59}, year = {2000}, language = {en} } @inproceedings{SchuetteHuisingaDeuflhard2001, author = {Sch{\"u}tte, Christof and Huisinga, Wilhelm and Deuflhard, Peter}, title = {Transfer Operator Approach to Conformational Dynamics in Biomolecular Systems}, series = {Ergodic Theory, Analysis, and Efficient Simulation of Dynamical Systems}, booktitle = {Ergodic Theory, Analysis, and Efficient Simulation of Dynamical Systems}, editor = {Fiedler, B.}, publisher = {Springer}, pages = {191 -- 223}, year = {2001}, language = {en} } @inproceedings{DeuflhardSchuette2004, author = {Deuflhard, Peter and Sch{\"u}tte, Christof}, title = {Molecular Conformation Dynamics and Computational Drug Design}, series = {Applied Mathematics Entering the 21st Century}, volume = {116}, booktitle = {Applied Mathematics Entering the 21st Century}, editor = {Hill, James and Moore, Ross}, publisher = {SIAM}, pages = {91 -- 119}, year = {2004}, language = {en} } @inproceedings{DeuflhardSeebass1998, author = {Deuflhard, Peter and Seebaß, Martin}, title = {Adaptive Multilevel FEM as Decisive Tools in the Clinical Cancer Therapy Hyerthermia}, series = {Proc. Eleventh International Conference on Domain Decomposition Methods in Sciences and Engineering}, booktitle = {Proc. Eleventh International Conference on Domain Decomposition Methods in Sciences and Engineering}, editor = {Lai, Choi-Hong and Bjorstad, Petter and Cross, Mark and Widlund, Olof}, address = {Greenwich, UK}, pages = {410 -- 421}, year = {1998}, language = {en} } @incollection{DeuflhardWeiser1997, author = {Deuflhard, Peter and Weiser, Martin}, title = {Local inexact Newton multilevel FEM for nonlinear elliptic problems}, series = {Computational science for the 21st century}, booktitle = {Computational science for the 21st century}, editor = {et al. Bristeau, M.-O.}, publisher = {Chichester: John Wiley \& Sons.}, pages = {129 -- 138}, year = {1997}, language = {en} }