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Männik, J. (author), Driessen, R. (author), Galajda, P. (author), Keymer, J.E. (author), Dekker, C. (author)
In many naturally occurring habitats, bacteria live in micrometer-size confined spaces. Although bacterial growth and motility in such constrictions is of great interest to fields as varied as soil microbiology, water purification, and biomedical research, quantitative studies of the effects of confinement on bacteria have been limited. Here, we...
journal article 2009
document
Krishnan, S.T. (author), Moolman, M.C. (author), Van Laar, T. (author), Meyer, A.S. (author), Dekker, N.H. (author)
Background Chromosome engineering encompasses a collection of homologous recombination-based techniques that are employed to modify the genome of a model organism in a controlled fashion. Such techniques are widely used in both fundamental and industrial research to introduce multiple insertions in the same Escherichia coli strain. To date, ?...
journal article 2015
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Gaio, N. (author), van Meer, B. (author), Quiros Solano, W.F. (author), Bergers, L. (author), van de Stolpe, A (author), Mummery, CL (author), Sarro, P.M. (author), Dekker, R. (author)
Organ-on-Chips (OOCs) are micro-fabricated devices which are used to culture cells in order to mimic functional units of human organs. The devices are designed to simulate the physiological environment of tissues in vivo. Cells in some types of OOCs can be stimulated in situ by electrical and/or mechanical actuators. These actuations can mimic...
journal article 2016
document
Vlijm, R. (author), Torre, J. (author), Dekker, C. (author)
The metabolism of DNA in cells relies on the balance between hybridized double-stranded DNA (dsDNA) and local de-hybridized regions of ssDNA that provide access to binding proteins. Traditional melting experiments, in which short pieces of dsDNA are heated up until the point of melting into ssDNA, have determined that AT-rich sequences have a...
journal article 2015
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Hol, F.J.H. (author), Voges, M.J. (author), Dekker, C. (author), Keymer, J.E. (author)
Background: Antagonistic interactions mediated by antibiotics are strong drivers of bacterial community dynamics which shape biodiversity. Colicin production by Escherichia coli is such an interaction that governs intraspecific competition and is involved in promoting biodiversity. It is unknown how environmental cues affect regulation of the...
journal article 2014
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Vlijm, R. (author), Lee, M. (author), Ordu, O. (author), Boltengagen, A. (author), Lusser, A. (author), Dekker, N.H. (author), Dekker, C. (author)
Eukaryotic nucleosomes consists of an (H3-H4)2 tetramer and two H2A-H2B dimers, around which 147 bp of DNA are wrapped in 1.7 left-handed helical turns. During chromatin assembly, the (H3-H4)2 tetramer binds first, forming a tetrasome that likely constitutes an important intermediate during ongoing transcription. We recently showed that (H3-H4)2...
journal article 2015
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Savov, A.M. (author), Joshi, S. (author), Shafqat, Salman (author), Hoefnagels, Johan P.M. (author), Louwerse, M.C. (author), Stoute, R. (author), Dekker, R. (author)
A device for studying the mechanical and electrical behavior of free-standing micro-fabricated metal structures, subjected to a very large deformation, is presented in this paper. The free-standing structures are intended to serve as interconnects in high-density, highly stretchable electronic circuits. For an easy, damage-free handling and...
journal article 2018
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van Driel, B.A. (author), van den Berg, K. J. (author), Smout, M. (author), Dekker, N (author), Kooyman, P.J. (author), Dik, J. (author)
This study reports on the effect of artists’ paint formulation on degradation rates of TiO2-based oil paints. Titanium white oil paint exists in a multitude of different recipes, and the effect of the formulation on photocatalytic binder<br/>degradation kinetics is unknown. These formulations contain, among others, one or both titanium dioxide...
journal article 2018
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Dekker, M.C. (author), Van Lochem, A.J. (author), Molenbroek, J.F.M. (author)
A healthy work-to-rest ratio during computer work can be an important part of successful preventive workrelated upper limb disorders (WRULD) intervention. Existing break software applications designed to realise such a work-to-rest ratio often possess product features that limit their functionality. Most applications focus on physical relaxation...
journal article 2015
document
Quiros Solano, W.F. (author), Gaio, N. (author), Stassen, O.M.J.A. (author), Arik, Y.B. (author), Silvestri, C. (author), Van Engeland, N.C.A. (author), van der Meer, A.D. (author), Passier, R. (author), Sahlgren, C.M. (author), Bouten, C.V.C. (author), van den Berg, A. (author), Dekker, R. (author), Sarro, P.M. (author)
We present a novel and highly reproducible process to fabricate transferable porous PDMS membranes for PDMS-based Organs-on-Chips (OOCs) using microelectromechanical systems (MEMS) fabrication technologies. Porous PDMS membranes with pore sizes down to 2.0 μm in diameter and a wide porosity range (2–65%) can be fabricated. To overcome issues...
journal article 2018
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Hol, F.J.H. (author), Galajda, P. (author), Woolthuis, R.G. (author), Dekker, C. (author), Keymer, J.E. (author)
Background The spatial structure of a habitat can have a strong impact on community dynamics. Different experimental approaches exist to explore the effect of spatial structure on bacterial communities. To investigate the effect of ‘space’, a single implementation of spatial structure is often contrasted to bacterial community dynamics in well...
journal article 2015
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Kim, S.H. (author), Vlijm, R. (author), van der Torre, J. (author), Dalal, Y. (author), Dekker, C. (author)
Centromere-specific nucleosomes are a central feature of the kinetochore complex during mitosis, in which microtubules exert pulling and pushing forces upon the centromere. CENP-A nucleosomes have been assumed to be structurally unique, thereby providing resilience under tension relative to their H3 canonical counterparts. Here, we directly test...
journal article 2016
document
Caspi, Y. (author), Dekker, C. (author)
Cell division in most prokaryotes is mediated by the well-studied fts genes, with FtsZ as the principal player. In many archaeal species, however, division is orchestrated differently. The Crenarchaeota phylum of archaea features the action of the three proteins, CdvABC. This Cdv system is a unique and less-well-studied division mechanism that...
journal article 2018
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