@article{PilariPreusseHuisinga2011,
  author    = {Pilari, Sabine and Preusse, Cornelia and Huisinga, Wilhelm},
  title     = {Gestational influences on the pharmacokinetics of gestagenic drugs a combined in silico, in vitro and in vivo analysis},
  series = {European journal of pharmaceutical sciences : official journal of the European Federation for Pharmaceutical Sciences, EUFEPS},
  volume    = {42},
  journal   = {European journal of pharmaceutical sciences : official journal of the European Federation for Pharmaceutical Sciences, EUFEPS},
  number    = {4},
  publisher = {Elsevier},
  address   = {Amsterdam},
  issn      = {0928-0987},
  doi       = {10.1016/j.ejps.2010.12.003},
  pages     = {318 -- 331},
  year      = {2011},
  abstract  = {During preclinical development of a gestagenic drug, a significant increase of the total plasma concentration was observed after multiple dosing in pregnant rabbits, but not in (non-pregnant) rats or monkeys. We used a PBPK modeling approach in combination with in vitro and in vivo data to address the question to what extent the pharmacologically active free drug concentration is affected by pregnancy induced processes. In human, a significant increase in sex hormone binding globulin (SHBG), and an induction of hepatic CYP3A4 as well as plasma esterases is observed during pregnancy. We find that the observed increase in total plasma trough levels in rabbits can be explained as a combined result of (i) drug accumulation due to multiple dosing, (ii) increase of the binding protein SHBG, and (iii) clearance induction. For human, we predict that free drug concentrations in plasma would not increase during pregnancy above the steady state trough level for non-pregnant women.},
  language  = {en}
}
@article{vonKleistMenzStockeretal.2011,
  author    = {von Kleist, Max and Menz, Stephan and Stocker, Hartmut and Arasteh, Keikawus and Schuette, Christof and Huisinga, Wilhelm},
  title     = {HIV quasispecies dynamics during pro-active treatment switching impact on multi-drug resistance and resistance archiving in latent reservoirs},
  series = {PLoS one},
  volume    = {6},
  journal   = {PLoS one},
  number    = {3},
  publisher = {PLoS},
  address   = {San Fransisco},
  issn      = {1932-6203},
  doi       = {10.1371/journal.pone.0018204},
  pages     = {12},
  year      = {2011},
  abstract  = {The human immunodeficiency virus (HIV) can be suppressed by highly active anti-retroviral therapy (HAART) in the majority of infected patients. Nevertheless, treatment interruptions inevitably result in viral rebounds from persistent, latently infected cells, necessitating lifelong treatment. Virological failure due to resistance development is a frequent event and the major threat to treatment success. Currently, it is recommended to change treatment after the confirmation of virological failure. However, at the moment virological failure is detected, drug resistant mutants already replicate in great numbers. They infect numerous cells, many of which will turn into latently infected cells. This pool of cells represents an archive of resistance, which has the potential of limiting future treatment options. The objective of this study was to design a treatment strategy for treatment-naive patients that decreases the likelihood of early treatment failure and preserves future treatment options. We propose to apply a single, pro-active treatment switch, following a period of treatment with an induction regimen. The main goal of the induction regimen is to decrease the abundance of randomly generated mutants that confer resistance to the maintenance regimen, thereby increasing subsequent treatment success. Treatment is switched before the overgrowth and archiving of mutant strains that carry resistance against the induction regimen and would limit its future re-use. In silico modelling shows that an optimal trade-off is achieved by switching treatment at \& 80 days after the initiation of antiviral therapy. Evaluation of the proposed treatment strategy demonstrated significant improvements in terms of resistance archiving and virological response, as compared to conventional HAART. While continuous pro-active treatment alternation improved the clinical outcome in a randomized trial, our results indicate that a similar improvement might also be reached after a single pro-active treatment switch. The clinical validity of this finding, however, remains to be shown by a corresponding trial.},
  language  = {en}
}
@inproceedings{SteenholdtEdlundAinsworthetal.2015,
  author    = {Steenholdt, Casper and Edlund, Helena and Ainsworth, Mark A. and Brynskov, Jorn and Thomsen, Ole Ostergaard and Huisinga, Wilhelm and Kloft, Charlotte},
  title     = {Relationship between measures of infliximab exposure and clinical outcome of infliximab intensification at therapeutic failure in Crohn's disease},
  series = {JOURNAL OF CROHNS \& COLITIS},
  volume    = {9},
  booktitle = {JOURNAL OF CROHNS \& COLITIS},
  publisher = {Oxford Univ. Press},
  address   = {Oxford},
  issn      = {1873-9946},
  pages     = {S330 -- S330},
  year      = {2015},
  language  = {en}
}
@article{MenzLatorreSchuetteetal.2012,
  author    = {Menz, Stephan and Latorre, Juan C. and Sch{\"u}tte, Christof and Huisinga, Wilhelm},
  title     = {Hybrid stochastic-deterministic solution of the chemical master equation},
  series = {Multiscale modeling \& simulation : a SIAM interdisciplinary journal},
  volume    = {10},
  journal   = {Multiscale modeling \& simulation : a SIAM interdisciplinary journal},
  number    = {4},
  publisher = {Society for Industrial and Applied Mathematics},
  address   = {Philadelphia},
  issn      = {1540-3459},
  doi       = {10.1137/110825716},
  pages     = {1232 -- 1262},
  year      = {2012},
  abstract  = {The chemical master equation (CME) is the fundamental evolution equation of the stochastic description of biochemical reaction kinetics. In most applications it is impossible to solve the CME directly due to its high dimensionality. Instead, indirect approaches based on realizations of the underlying Markov jump process are used, such as the stochastic simulation algorithm (SSA). In the SSA, however, every reaction event has to be resolved explicitly such that it becomes numerically inefficient when the system's dynamics include fast reaction processes or species with high population levels. In many hybrid approaches, such fast reactions are approximated as continuous processes or replaced by quasi-stationary distributions in either a stochastic or a deterministic context. Current hybrid approaches, however, almost exclusively rely on the computation of ensembles of stochastic realizations. We present a novel hybrid stochastic-deterministic approach to solve the CME directly. Our starting point is a partitioning of the molecular species into discrete and continuous species that induces a partitioning of the reactions into discrete-stochastic and continuous-deterministic processes. The approach is based on a WKB (Wentzel-Kramers-Brillouin) ansatz for the conditional probability distribution function (PDF) of the continuous species (given a discrete state) in combination with Laplace's method of integral approximation. The resulting hybrid stochastic-deterministic evolution equations comprise a CME with averaged propensities for the PDF of the discrete species that is coupled to an evolution equation of the related expected levels of the continuous species for each discrete state. In contrast to indirect hybrid methods, the impact of the evolution of discrete species on the dynamics of the continuous species has to be taken into account explicitly. The proposed approach is efficient whenever the number of discrete molecular species is small. We illustrate the performance of the new hybrid stochastic-deterministic approach in an application to model systems of biological interest.},
  language  = {en}
}
@inproceedings{AnderssonKeuneckeEseretal.2014,
  author    = {Andersson, H. and Keunecke, A. and Eser, A. and Huisinga, Wilhelm and Reinisch, W. and Kloft, Charlotte},
  title     = {Pharmacokinetic considerations for optimising dosing regimens of a potsdam univ infliximab in patients with Crohn's disease},
  series = {JOURNAL OF CROHNS \& COLITIS},
  volume    = {8},
  booktitle = {JOURNAL OF CROHNS \& COLITIS},
  publisher = {Oxford Univ. Press},
  address   = {Oxford},
  issn      = {1873-9946},
  doi       = {10.1016/S1873-9946(14)60086-6},
  pages     = {S44 -- S44},
  year      = {2014},
  language  = {en}
}
@article{EngbertRabeKliegletal.2021,
  author    = {Engbert, Ralf and Rabe, Maximilian Michael and Kliegl, Reinhold and Reich, Sebastian},
  title     = {Sequential data assimilation of the stochastic SEIR epidemic model for regional COVID-19 dynamics},
  series = {Bulletin of mathematical biology : official journal of the Society for Mathematical Biology},
  volume    = {83},
  journal   = {Bulletin of mathematical biology : official journal of the Society for Mathematical Biology},
  number    = {1},
  publisher = {Springer},
  address   = {New York},
  issn      = {0092-8240},
  doi       = {10.1007/s11538-020-00834-8},
  pages     = {16},
  year      = {2021},
  abstract  = {Newly emerging pandemics like COVID-19 call for predictive models to implement precisely tuned responses to limit their deep impact on society. Standard epidemic models provide a theoretically well-founded dynamical description of disease incidence. For COVID-19 with infectiousness peaking before and at symptom onset, the SEIR model explains the hidden build-up of exposed individuals which creates challenges for containment strategies. However, spatial heterogeneity raises questions about the adequacy of modeling epidemic outbreaks on the level of a whole country. Here, we show that by applying sequential data assimilation to the stochastic SEIR epidemic model, we can capture the dynamic behavior of outbreaks on a regional level. Regional modeling, with relatively low numbers of infected and demographic noise, accounts for both spatial heterogeneity and stochasticity. Based on adapted models, short-term predictions can be achieved. Thus, with the help of these sequential data assimilation methods, more realistic epidemic models are within reach.},
  language  = {en}
}
@article{SharmaHainzlZoeller2023,
  author    = {Sharma, Shubham and Hainzl, Sebastian and Z{\"o}ller, Gert},
  title     = {Seismicity parameters dependence on main shock-induced co-seismic stress},
  series = {Geophysical journal international},
  volume    = {235},
  journal   = {Geophysical journal international},
  number    = {1},
  publisher = {Oxford Univ. Press},
  address   = {Oxford},
  issn      = {0956-540X},
  doi       = {10.1093/gji/ggad201},
  pages     = {509 -- 517},
  year      = {2023},
  abstract  = {The Gutenberg-Richter (GR) and the Omori-Utsu (OU) law describe the earthquakes' energy release and temporal clustering and are thus of great importance for seismic hazard assessment. Motivated by experimental results, which indicate stress-dependent parameters, we consider a combined global data set of 127 main shock-aftershock sequences and perform a systematic study of the relationship between main shock-induced stress changes and associated seismicity patterns. For this purpose, we calculate space-dependent Coulomb Stress (\& UDelta;CFS) and alternative receiver-independent stress metrics in the surrounding of the main shocks. Our results indicate a clear positive correlation between the GR b-value and the induced stress, contrasting expectations from laboratory experiments and suggesting a crucial role of structural heterogeneity and strength variations. Furthermore, we demonstrate that the aftershock productivity increases nonlinearly with stress, while the OU parameters c and p systematically decrease for increasing stress changes. Our partly unexpected findings can have an important impact on future estimations of the aftershock hazard.},
  language  = {en}
}
@phdthesis{Sareeto2024,
  author    = {Sareeto, Apatsara},
  title     = {Algebraic properties of a subsemigroup of the symmetric inverse semigroup},
  school      = {Universit{\"a}t Potsdam},
  pages     = {92},
  year      = {2024},
  language  = {en}
}
@article{GerlachGlueck2017,
  author    = {Gerlach, Moritz Reinhardt and Gl{\"u}ck, Jochen},
  title     = {On a convergence theorem for semigroups of positive integral operators},
  series = {Comptes Rendus Mathematique},
  volume    = {355},
  journal   = {Comptes Rendus Mathematique},
  publisher = {Elsevier},
  address   = {Paris},
  issn      = {1631-073X},
  doi       = {10.1016/j.crma.2017.07.017},
  pages     = {973 -- 976},
  year      = {2017},
  abstract  = {We give a new and very short proof of a theorem of Greiner asserting that a positive and contractive -semigroup on an -space is strongly convergent in case it has a strictly positive fixed point and contains an integral operator. Our proof is a streamlined version of a much more general approach to the asymptotic theory of positive semigroups developed recently by the authors. Under the assumptions of Greiner's theorem, this approach becomes particularly elegant and simple. We also give an outlook on several generalisations of this result.},
  language  = {en}
}
@article{Gerlach2018,
  author    = {Gerlach, Moritz Reinhardt},
  title     = {Convergence of dynamics and the Perron-Frobenius operator},
  series = {Israel Journal of Mathematics},
  volume    = {225},
  journal   = {Israel Journal of Mathematics},
  number    = {1},
  publisher = {Hebrew univ magnes press},
  address   = {Jerusalem},
  issn      = {0021-2172},
  doi       = {10.1007/s11856-018-1671-7},
  pages     = {451 -- 463},
  year      = {2018},
  abstract  = {We complete the picture how the asymptotic behavior of a dynamical system is reflected by properties of the associated Perron-Frobenius operator. Our main result states that strong convergence of the powers of the Perron-Frobenius operator is equivalent to setwise convergence of the underlying dynamic in the measure algebra. This situation is furthermore characterized by uniform mixing-like properties of the system.},
  language  = {en}
}