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Martins Da Ponte, R. (author), Gaio, N. (author), van Zeijl, H.W. (author), Vollebregt, S. (author), Dijkstra, Paul (author), Dekker, R. (author), Serdijn, W.A. (author), Giagka, Vasiliki (author)
One of the many applications of organ-on-a-chip (OOC) technology is the study of biological processes in human induced pluripotent stem cells (iPSCs) during pharmacological drug screening. It is of paramount importance to construct OOCs equipped with highly compact in situ sensors that can accurately monitor, in real time, the extracellular...
journal article 2021
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Mouter, N. (author), Koster, Paul (author), Dekker, Thijs (author)
Participatory Value Evaluation (PVE) is a new method to assess the desirability of government projects. In a PVE, individuals select their preferred portfolio of government projects given a constrained public budget. Individuals’ preferences for (the impacts of) government projects can be determined based on these choices. The obtained...
journal article 2021
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Birnie, Anthony (author), Dekker, C. (author)
Chromosome structure and dynamics are essential for life, as the way that our genomes are spatially organized within cells is crucial for gene expression, differentiation, and genome transfer to daughter cells. There is a wide variety of methods available to study chromosomes, ranging from live-cell studies to single-molecule biophysics,...
review 2021
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Dekker, Quinten (author)
Dense 3D modeling based on monocular visual data is a powerful process of gaining spatial 3D understanding from 2D observations. The use of visual data to reconstruct such 3D models is still a challenging topic. To obtain the accurate dimensions, additional metadata is required such as a GPS which is not always available. Besides this, dealing...
master thesis 2020
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Dekker, F.W. (author)
Privacy-preserving data aggregation protocols have been researched widely, but usually cannot guarantee correctness of the aggregate if users are malicious. These protocols can be extended with zero-knowledge proofs and commitments to work in the malicious model, but this incurs a significant computational cost on the end users, making adoption...
master thesis 2020
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Van Riessen, Bart (author), Mulder, Judith (author), Negenborn, R.R. (author), Dekker, Rommert (author)
The cargo fare class mix (CFCM) problem aims to find the optimal fare class mix for a given intermodal transportation network based on known client demands. It is based on a revenue management problem for aviation passengers, the fare class mix problem, but considering intermodal cargo transportation, two major differences apply. Firstly, the...
journal article 2020
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Dekker, Melina (author)
Freezing of Gait (FoG) is a debilitating walking problem affecting over 50\% of Parkinson's Disease (PD) patients. Rhythmic cues during FoG can help patients to resume walking. FoG can be detected from lower limb acceleration data, but current detection algorithms lack context, resulting in false positive detection and initiation of cues when...
master thesis 2020
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Dekker, Jelle (author), Vermeulen, Stefan (author), de Roode, Menno (author), Li, Yangzi (author)
The province of South Holland is a key player in the global food economy. However, its agrifood sector is currently generating unwanted outputs. CO<sub>2 </sub>emissions are the largest and most problematic output flow of this sector, causing negative externalities such as climate change and sea-level rise. Actors producing the CO<sub>2</sub>...
student report 2020
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de Man, P. (author), van Straten, B.J. (author), van den Dobbelsteen, J.J. (author), van der Eijk, A. (author), Dekker, S. (author), Horeman, T. (author), Koeleman, H. (author)
other 2020
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Waafi, Affan K. (author), Gaio, N. (author), Quiros Solano, W.F. (author), Dijkstra, Paul (author), Sarro, P.M. (author), Dekker, R. (author)
We present the first Organ-on-Chip equipped with a low-impedance Poly(3,4-ethylenedioxythiophene) polystyrene sulfonate (PEDOT:PSS) MicroElectrode Array (MEA). The novel device allows simultaneous mechanical stimulation with a stretchable PDMS membrane and electrical monitoring via the PEDOT:PSS MEA of multiple in vitro cell cultures. The...
journal article 2020
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Last, M.G.F. (author), Deshpande, S.R. (author), Dekker, C. (author)
Membraneless organelles formed by liquid-liquid phase separation are dynamic structures that are employed by cells to spatiotemporally regulate their interior. Indeed, complex coacervation-based phase separation is involved in a multitude of biological tasks ranging from photosynthesis to cell division to chromatin organization, and more....
journal article 2020
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Størkersen, Kristine (author), Thorvaldsen, Trine (author), Kongsvik, Trond (author), Dekker, S.W.A. (author)
Over the past decades, government safety management regulation has been driven by deregulation, simplification and organization-level regimes of inspection. So-called functional rule-making requires organizations to implement safety management systems appropriate for their operations. The paradox that seems to have arisen is that...
journal article 2020
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Kaczmarczyk, A.P. (author), Meng, He (author), Ordu, O. (author), Noort, John van (author), Dekker, N.H. (author)
Torsional stress generated during DNA replication and transcription has been suggested to facilitate nucleosome unwrapping and thereby the progression of polymerases. However, the propagation of twist in condensed chromatin remains yet unresolved. Here, we measure how force and torque impact chromatin fibers with a nucleosome repeat length of...
journal article 2020
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Kim, E. (author), Kerssemakers, J.W.J. (author), Shaltiel, Indra A. (author), Haering, Christian H. (author), Dekker, C. (author)
Condensin, a key component of the structure maintenance of chromosome (SMC) protein complexes, has recently been shown to be a motor that extrudes loops of DNA<sup>1</sup>. It remains unclear, however, how condensin complexes work together to collectively package DNA into chromosomes. Here we use time-lapse single-molecule visualization to...
journal article 2020
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Smith, Kathleen Beth (author), Wehrli, Monika (author), Japaridze, A. (author), Assenza, Salvatore (author), Dekker, C. (author), Mezzenga, Raffaele (author)
The fine interplay between the simultaneous stretching and confinement of amyloid fibrils is probed by combining a microcapillary setup with atomic force microscopy. Single-molecule statistics reveal how the stretching of fibrils changed from force to confinement dominated at different length scales. System order, however, is solely ruled by...
journal article 2020
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Fragasso, A. (author), Schmid, S. (author), Dekker, C. (author)
Nanopores bear great potential as single-molecule tools for bioanalytical sensing and sequencing, due to their exceptional sensing capabilities, high-throughput, and low cost. The detection principle relies on detecting small differences in the ionic current as biomolecules traverse the nanopore. A major bottleneck for the further progress of...
review 2020
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Japaridze, A. (author), Gogou, C. (author), Kerssemakers, J.W.J. (author), Nguyen, Huyen My (author), Dekker, C. (author)
The replication and transfer of genomic material from a cell to its progeny are vital processes in all living systems. Here we visualize the process of chromosome replication in widened E. coli cells. Monitoring the replication of single chromosomes yields clear examples of replication bubbles that reveal that the two replisomes move...
journal article 2020
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Caneva, S. (author), Hermans, Matthijs (author), Lee, M. (author), García-Fuente, Amador (author), Watanabe, Kenji (author), Taniguchi, Takashi (author), Dekker, C. (author), Ferrer, Jaime (author), van der Zant, H.S.J. (author), Gehring, P. (author)
Graphene quantum dots (QDs) are intensively studied as platforms for the next generation of quantum electronic devices. Fine tuning of the transport properties in monolayer graphene QDs, in particular with respect to the independent modulation of the tunnel barrier transparencies, remains challenging and is typically addressed using...
journal article 2020
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Bakhshaee Babaroud, N. (author), Dekker, R. (author), Serdijn, W.A. (author), Giagka, Vasiliki (author)
Parylene-C has been used as a substrate and encapsulation material for many implantable medical devices. However, to ensure the flexibility required in some applications, minimize tissue reaction, and protect parylene from degradation in vivo an additional outmost layer of polydimethylsiloxane (PDMS) is desired. In such a scenario, the...
conference paper 2020
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Bengtson, M.L. (author), Bharadwaj, M. (author), ten Bosch, A.P. (author), Nyakundi, Hellen (author), Matoke-Muhia, Damaris (author), Dekker, C. (author), Diehl, J.C. (author)
The rapid growth of point-of-care (POC) diagnostic tests necessitates a clear vision of when, where, and why a new POC diagnostic test needs to be developed and how it can be used in a way that matches a local health care context. Here, we present an innovative approach toward developing a concept target product profile (CTPP), which is a new...
journal article 2020
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