Making a dynamic substance stock model in order to conduct scenario analyses and make forecasts.

An integrated approach of physiological concepts, advanced statistical approaches and large clinical datasets.

Peter Grunwald

In this project, we aim to develop mathematical models to mechanistically and quantitatively predict the dynamics of cellular stress pathway activation and its relation with toxic effects when cells are exposed to various toxicants.

ASLU 14

From surface science towards industrial practice using high-pressure scanning tunneling microscopy.

In this thesis, we extend the concept of null models as canonical ensembles of multi-graphs with given constraints and present new metrics able to characterize real-world layered systems based on their correlation patterns.

We have studied shape with a particular focus on the zebrafish model system. The shape is an essential appearance of the phenotype of a biological specimen and it can be used to read out a current state or response or to study gene expression.

Classical mathematical models treat space and time as a continuum, while it is sometimes more useful to regard it as granular. Hupkes is studying what this means for a number of important patterns that are often found in computer calculations and in nature.

Wiskunde en Natuurwetenschappen, Centrum voor Milieuwetenschappen Leiden (CML)

Promotor: Prof.dr. W.J.G.M. Peijnenburg, Co-promotor: Dr. ing. M.G. Vijver

In this research project child language phonology is studied from the perspective of a psycholinguistic speech-production model and this model is in turn studied from the perspective of developmental phonology.

A research agenda

Synthetic microswimmers take an important place within the interdisciplinary field of active soft matter.

Lysosomal storage disorders (LSDs) are a group of orphan diseases characterized by lysosomal dysfunction or impaired lysosomal catabolism and affect collectively about 1 in 5000 live births.

Are predictive archaeological maps a reliable tool to play an important role in the spatial planning? One of the goals of this project was to develop best practices for the production and application of the models.

In this thesis, mathematical modeling and simulation was applied as a tool to inform quantitative decision making in oncology drug discovery and development.

Chemical reactions go hand-in-hand with an energy exchange with the environment in which they take place. Surfaces offer a variety of energy dissipation channels, constituted by the nuclear and electronic degrees of freedom of the atoms at the interface. Aiming at an improved future harvesting of energy,…

Promotor: M. Danhof, Co-promotores: J. Freijer, A. Yassen

Growth hormone profiles are pulsatile and highly variable between individuals, limiting the implementation of mathemathical models to quantify an individual's secretion.

Promotor: Prof.dr. V. Icke, Co-Promotor: T.I. Madura

The aim of this project is to determine in which cases uncertainty statements resulting from a Bayesian statistical analysis can be trusted.

Promotor: Prof. dr. A.G.G.M. Tielens

It is a common technique in global optimization with expensive black-box functions to learn a surrogate-model of the response function from past evaluations and use it to decide on the location of future evaluations.

Source: J Cheminform, Volume 7, Issue 1 (2015)

The objective of this project is the development of a new psychometric model, called the Generalized Squared Distance Logistic Model (GSDLM). This model is an evolution of older psychometric approaches (such as PARELLA, GHCM, and GGUM) and the Gaussian Ordination Models (GOMs) used in environmental…

Promotor: Prof.dr. F. den Hollander

Promotor: P.D. Grünwald

Business Process Model and Notation (BPMN) has become the standard for business processes diagrams.

Describe and identify what dosimetry parameters are of importance to interpret dose-response relationships (eg., mortality, sub-lethal, growth or reproduction inhabitation, DNA damage and reactive oxygen species, etc. ) for metal-based nanoparticles? How to develop quantitative models that enable to…

Following their application to system biological models, control theory techniques have further potential to aid in the understanding and application of quantitative systems pharmacology models.

How can zebrafish models be used to gain a better understanding of host-pathogen interaction mechanisms and to screen new drugs for infectious disease treatment?

A main goal of MSBB research is to address the major bottle-necks in combatting viral diseases: the lack of experimental models that are representative of human pathology and are cost effective and versatile. Viral diseases such as those that cause viral hemorrhagic syndromes or severe acute respiratory…

In surface science there is great effort to move from studying simple, flat model surfaces in vacuum to investigating more complex model catalysts in gas environments (in situ). This thesis gives three examples of such studies using microscopy and spectroscopy.

An integrated approach for the simultaneous prediction of polypharmacology and binding affinity/potency of small molecules.

Appropriate animal models for intradermal vaccine delivery are scarce. Given the high similarity of their skin anatomy to that of humans, minipigs may be a suitable model for dermal vaccine delivery.

Promotores: Arjen Doelman, Jens Rademacher, Max Rietkerk

Wiskunde en Natuurwetenschappen, Mathematisch Instituut (MI)

The project Deconstructing Stability aims to improve reconstructions of late prehistoric landscapes and predictive models for the purpose of archaeological heritage management.

A novel mathematical model describes spatial-temporal drug distribution within one or more brain units, which are cubic representations of a piece of brain tissue with brain capillaries at the edges.

To limit the effects of climate change, global average temperature since pre-industrial measurements are to be kept well below 2 °C preferably even at 1.5 °C.

This dissertation addresses the different use of the same philosophical model: immanent teleology. In this work Aristotle, the founder of the study of final causes, is put in relation with the modern French evolutionary thinker Henri Bergson, the philosopher of time. The dissertation tackles the two…

Wiskunde en Natuurwetenschappen, Leiden Academic Centre for Drug Research (LACDR)

The growing demand of energy indicates that global energy resources in the form of fossil fuels will not be sufficient in the future. In order to solve potential future energy problems development of a sustainable hydrogen economy is highly desirable.

Netherlands Statistics (CBS), Leiden University and the University of Amsterdam have started a collaboration in the form of a research project titled 'Enriching official economic statistics using data-driven modelling techniques'.

Which traits did change due to the invasion process of plants and how do these traits contribute to the invasiveness of such species. What is the role of carbohydrate accumulation? What is the function of carbohydrate accumulation in plants? Is genetic variation depleted in invasive species under se…

In this thesis we study quantum transport phenomena on the nanometer scale, in two classes of materials: topological insulators with induced superconductivity and graphene superlattices.

Promotor: Prof.dr. B.R. Katzy, Co-promotor: R. Ortt

Wiskunde en Natuurwetenschappen, Leids Instituut voor Chemisch Onderzoek (LIC)

Drug-target binding kinetics determine the time course of the central event in pharmacotherapy: Drug-target interaction.