Searched for: contributor%3A%22Dekker%2C+C.+%28promotor%29%22
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Tišma, M. (author)
This thesis explores the mechanisms that underlie chromosome organization in bacteria. Bacteria are considered amongst the simplest living organisms on our planet. They lack the cellular organization found in other domains of life (Archaea or Eukaryotics) and often have simpler life cycles. Over the past decade, we gained increasing knowledge...
doctoral thesis 2024
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Klughammer, N. (author)
In this thesis, we have introduced palladium zero-mode waveguides (Pd ZMWs) as a valuable tool for biophysics research and have showcased several applications thereof. We started by using them as single-molecule sensors for free translocations of fluorophores, proteins, and voltage-driven translocations of DNA. By studying salt-gradient driven...
doctoral thesis 2023
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Birnie, A.T.F. (author)
doctoral thesis 2023
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Blanch Jover, A. (author)
All living organisms share the need to replicate and proliferate to ensure the survival of their species. In prokaryotes, this is generally guaranteed by a process of cell division where a mother cell is split into two equally sized daughter cells, and it is a complex and heterogeneous process across all the different species. When looking into...
doctoral thesis 2022
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Filius, M. (author)
Proteins are the workhorses of the cell, as such, they form the basis of all living systems. In order to fully understand biological processes, the ability to identify and quantify the proteins in cells is crucial. Identification can be achieved by determining the amino acid sequence of proteins, since this sequence is unique for each protein....
doctoral thesis 2022
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Fragasso, A. (author)
At first glance nanopores may appear simple, almost intuitive, to understand given that they are, quite literally, ‘just’ very small pores in a membrane. In fact, one may even wonder why at all we need trained scientists to study such seemingly simple entities. The short answer is that nanopores, as the word suggests, are nanoscale entities and,...
doctoral thesis 2021
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Yang, W.W.W. (author)
We start this thesis by exploring the question whether there is more to be done with solid-state nanopores, given the success of nanopores for DNA sequencing applications.
doctoral thesis 2021
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Bengtson, M.L. (author)
The aim of this thesis was to develop a DNA-detection scheme for a point-of-care diagnostic test for Neglected Tropical Diseases (NTDs) for use within resource-limited settings. The scientific innovation is to develop an adaptable DNA-detection scheme, using CRISPR-dCas9 (catalytically inactive Cas9), that can detect the DNA of any pathogen in...
doctoral thesis 2021
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Fanalista, F. (author)
Cell replication is a fascinating biological process that ensures the proliferation of a species via division of a mother cell into two daughter ones. This process in bacteria is performed by a complex protein machinery named the Z-ring, which assembles at the cell mid-plane and promotes progressive membrane constriction down to division. A...
doctoral thesis 2020
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Kabiri, Y. (author)
The low contrast of biomolecules in TEM has been a great obstacle for their structure determination and hence to the understanding of their structure-function relation. Historically, single DNA strands remained one the most difficult classes of biomolecular specimens to image, due to low electron scattering strength of its constituent elements....
doctoral thesis 2019
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Restrepo Perez, L. (author)
The function and phenotype of a cell is determined by a complex network of interactions between DNA, RNA, proteins and metabolites. Therefore, a comprehensive approach that integrates genomics, transcriptomics, proteomics, and metabolomics is necessary to achieve full understanding of biological processes and disease. Recent technological...
doctoral thesis 2019
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Verschueren, D.V. (author)
Grabbing a single molecule and inspecting its contents is far from easy. Apart from the small size of the objects, biomolecules shake, shimmer, and bounce around a tremendous amount. How can one gently control something that small (without squashing or destroying it) and still be able to tell what it is? The work in this thesis is exactly aimed...
doctoral thesis 2018
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Ananth, A.N. (author)
Nuclear pore complexes acts as a gatekeeper for molecular transport between the nucleus and the cytoplasm in eukaryotic cells. The central NPC channel is filled with intrinsically disordered FG domains (phenylalanine (F), glycine (G)) that are responsible for the fascinating selectivity of NPCs, for which the underlying mechanism is still under...
doctoral thesis 2018
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Heerema, S.J. (author)
The information that can be extracted from DNA base sequences, is important for our understanding of biology, for insights in disease, and the way we practice medicine. The technology that one uses to determine DNA-base sequences is called ‘DNA sequencing’. A portable device that enables fast and accurate sequencing, can potentially greatly...
doctoral thesis 2018
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Eeftens, J.M. (author)
Every cell deals with the challenge of organising its DNA. First, the DNA needs to be compacted in size by several orders of magnitude. For example, in each human cell, 2 meters of DNA need to fit inside a micron-sized cell nucleus. Second, the DNA needs to stay accessible for cellular processes such as transcription and replication. To achieve...
doctoral thesis 2017
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Loeff, L. (author)
Bacteria and archaea are constantly threatened by a large array of viruses and other genetic elements. Driven by evolution, these organisms have acquired a wide arsenal of defense mechanisms that allow the host organism to fight off the invaders. Among these defense mechanisms is an adaptive and inheritable that is conveyed through Clustered...
doctoral thesis 2017
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Wiktor, J.M. (author)
It seems that the evolution of life on this planet repeatedly acknowledges the value of<br/>the genetic information, by providing an abundant variety of elegant mechanisms for the repair of damage occurring to DNA. The need for such mechanisms tells us that the state of cellular DNA is under constant threat of disintegration and decay. This may...
doctoral thesis 2017
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van Ginkel, H.G.T.M. (author)
Proteins belong to the most important molecules in living organisms. They function as messengers, transporters and catalysts, and provide cells and tissues with structure. The expression profile of proteins is rich in information, which can be used, for example, in diagnosing diseases. Therefore proteomics, the large scale study of proteins, can...
doctoral thesis 2016
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Ganji, M. (author)
doctoral thesis 2016
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Wu, F. (author)
One of the most basic features that pervade biology is the existence of boundaries that separate living cells from their outer environments. Molecules responsible for the internal organization of a living cell must adapt to its boundaries, as the cell grows, divides, and changes in shape and size. In this thesis, we aim to understand how...
doctoral thesis 2015
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