We study the interplay of topology and geometry with chirality for several passive and active systems, employing both analytical and numerical methods.

Promotor: Prof.dr. C.W.J. Beenakker

Biological polymers, including proteins and the genome, undergo folding processes crucial for their proper functioning. Even slight changes in the folding structure of these biopolymers can have significant implications, leading to the development of various pathological conditions, such as neurodegenerative…

Promotor: J. Zaanen, Co-Promotor: V. Juricic

This thesis consists of three papers that are centered around the common theme of Hausdorff uo-Lebesgue topologies and convergence structures on vector lattices and on vector lattices and vector lattice algebras of order bounded operators.

My PhD research is devoted to studies of the conjectural cluster-algebraic symmetry in the theory of topological string, which is the simplest, however already non-trivial sector in the theory of string.

Promotor: S.M. Verduyn Lunel, Co-promotoren: M.F.E. de Jeu, S.D. Silvestrov

Promotor: P. Stevenhagen, Co-promotor: R.M. van Luijk

The key characteristic of active matter is the motion of an emergent collection (such as a flock of birds), which is driven by the consumption of energy by its active components (i.e. individual birds).

This thesis covers various applications of topology in condensed matter physics and quantum information.

The main focus of this thesis is the behaviour of two-dimensional materials, namely (anti)-ferromagnetic materials in the first two chapters, which show topological phases, and energetic square ice in the third and fourth chapter.

Topology is an emerging field within many scientific disciplines, even leading to a Physics Nobel Prize in 2016. Leiden physicist Marcello Caio and his colleagues have now discovered the existence of topological currents in analogy to electric currents. Publication in Nature Physics on January 14th.

Make more fluid: In condensed matter systems, electrons can acquire unusual properties from their interaction with the atomic lattice.

The insights leading to the present project firstly manifested themselves in 2008, when I worked with field recordings on the basis of relatively well-established notions in music composition studies, such as ‘musical material’ and écriture. With hindsight, I understand the outcomes of those first experiments…

This thesis introduces the concept of

Molecular Physiology is a research group at the Leiden Institute of Chemistry dedicated to the design, synthesis and application of chemical tools to study important biological and biomedical questions. The group is headed by Prof. Dr. Mario van der Stelt and includes the research lines of Assistant…

Tracing the evolution of the molecular gas content in galaxies is critical for a complete understanding of galaxy formation and evolution, as it provides the direct fuel for star formation. Studies of high-redshift (z>1) molecular gas reservoirs, most commonly traced by carbon monoxide (CO), have seen…

In this research group, headed by Laura Heitman, novel receptor concepts in drug discovery are studied, aiming to increase the effectivity of medicines. Many drugs act via so-called G protein-coupled receptors (GPCRs) and therefore our research is mainly focused on understanding and improving drug-receptor…

The thesis mainly contributes to the characterization of Majorana fermions as they appear in the Condensed Matter context.

Chemistry is all around us: from nutrition and smartphones to medicine. The field is developing rapidly, as the world population continues to grow and resources become scarce. MST will educate you on the basics of working towards a clean and healthy world.

Promotor: J.N. Kok, P.E. Slagboom Co-promotor: J.F.J. Laros

In the master’s specialisation Molecular Genetics and Biotechnology at Leiden University students are trained by experts in the areas of molecular biology, microbiology, plant genetics, cellular imaging, animal disease models, and various –omics technologies and the corresponding bioinformatics.

The team of Alireza Mashaghi at the Leiden Academic Centre for Drug Research has found a way to determine and classify the shape of proteins. Their new theory defines the topology of proteins as a simple and precise barcode that allows the identification of all types of folds. ‘This barcode enables…

This programme video is presented in Dutch

The ambition of the Medical Systems Biophysics and Bioengineering group led by Alireza Mashaghi is to develop and use physics and engineering concepts and tools for pathophysiology, diagnostics and therapy.

The research presented in this thesis makes use of small molecules (as H2 , D2 and O2 ) on well-defined single crystal surfaces (flat Pt(111), flat Cu(211) and curved Pt(111)) to elucidate the role of surface structure and degrees of freedom in the reactant in specific surface reactions.

Human cells are protecting their proteins from unfolding and aggregating. That's what biophysicist Alireza Mashaghi and his team discovered after seven years of in-depth research into the folding mechanisms of proteins. With an unprecedented approach, the team was able to study the folding of a single…

Molecular complexes can be used as electrocatalysts for oxygen reduction, water oxidation, and/or hydrogen peroxide production.

The master's specialisation Molecular, Cellular and Organismal Biology at Leiden University examines the molecular mechanisms underlying health and disease and how cells and organisms adapt to environmental factors.

How do you fit two meters of DNA in a tiny compartment and at the same time are able to access the right parts of it at the right times?

With the energy transition toward a renewable energy supply and a CO2-neutral economy, electrification of the energy system is rising in importance, which leads to the challenge of long-term storage of renewable electricity.

This thesis provides an overview of the development of the Pair Configuration to Molecular Activity Coefficient (PAC-MAC) model.

Mashaghi lab conducts research at the interface of physics, engineering and biomedicine. We develop and use theoretical and experimental approaches to address basic and applied research problems.

Molecular materials have been a subject of interest in fundamental research and applications for decades, and have been studied as bulk crystals, (thin) films and as individual molecules, due to the large variety in their properties. This dissertation explores pentacene crystals near the two-dimensional…

Phosphorylation affects all four major biomolecules – proteins, lipids, carbohydrates and nucleic acids – and plays a pivotal role in the most fundamental cellular functions.

Physics and Engineering Approaches to Biomedicine and Pharmacology

Promotor: Prof.dr. H.V.J. Linnartz, Co-Promotores: S. Ioppolo, H.M. Cuppen

Adverse drug reactions (ADRs) remain one of the major reasons for patient mortality and (early) drug withdrawal. Currently, different in vivo and in vitro models are used to assess the toxic potential of drugs in the pre-clinical phase. Unfortunately, the predictive value of this model does not fit…

Before the large scale use of renewable energy sources can be implemented in our society, the storage of electrical energy needs to be tackled. Storage the energy as hydrogen via the reduction of protons is a good option.

Atoms and molecules are the basic units of matter. If we keep dividing a bar of gold or a glass of water into smaller parts, at the end we are left with a single gold atom or a water molecule.

Promotor: G.F.A. Kersten, W. Jiskoot, Co-promotor: B. Metz

Promotor: Prof.dr. G.J. Kroes

The research described in this thesis has, using the zebrafish as a model system, shed new light on the intricate relationship between TB and DM2, in particular on the role of leptin, SHP-1 and glucocorticoids.

Press coverage for the Nature Physics-paper about topological materials by Anne Meeussen, Erdal Oğuz, Yair Shokef and Martin van Hecke

Metal complexes and 2D materials like graphene were combined to produce structures that can function as sensors.

We have examined sequences from the ligand-binding domain of the nicotinic acetyl choline receptor (nAChR) in 148 vertebrate species. We are in interested in this receptor because the α-neurotoxins of many venomous snakes binds to this receptor in its location at the neuromuscular junction in all ve…

The clinical potential of applying synthetic lethality to cancer treatment is famously demonstrated by the BRCA1/PARP1 paradigm: a tumor specific defect in BRCA1 – a component of the DNA double-strand break (DSB) repair pathway homologous recombination (HR) – results in a remarkable sensitivity to PARP1…