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Lee, Kuo Ming (author), Gong, Yu Nong (author), Hsieh, Tzu Hsuan (author), Woodman, Andrew (author), Dekker, N.H. (author), Cameron, Craig E. (author), Shih, Shin Ru (author)
Enterovirus A71 (EV-A71) is an important nonpolio enterovirus that causes severe neurological complications. In 1998, Taiwan experienced an EV-A71 outbreak that caused 78 deaths. Since then, periodic epidemics of EV-A71 associated with newly emerging strains have occurred. Several of these strains are known to be recombinant; however, how...
journal article 2018
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van Oene, M.M. (author), Ha, S. (author), Jager, T. (author), Lee, M. (author), Pedaci, F. (author), Lipfert, J. (author), Dekker, N.H. (author)
Single-molecule manipulation techniques have provided unprecedented insights into the structure, function, interactions, and mechanical properties of biological macromolecules. Recently, the single-molecule toolbox has been expanded by techniques that enable measurements of rotation and torque, such as the optical torque wrench (OTW) and...
journal article 2018
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Nechemia-Arbely, Yael (author), Fachinetti, Daniele (author), Miga, Karen H. (author), Sekulic, Nikolina (author), Soni, G.V. (author), Kim, Dong Hyun (author), Wong, Adeline K. (author), Lee, Ah Young (author), Nguyen, Kristen (author), Dekker, C. (author), Ren, Bing (author), Black, Ben E. (author), Cleveland, Don W. (author)
Chromatin assembled with centromere protein A (CENP-A) is the epigenetic mark of centromere identity. Using new reference models, we now identify sites of CENP-A and histone H3.1 binding within the megabase, α-satellite repeat-containing centromeres of 23 human chromosomes. The overwhelming majority (97%) of α-satellite DNA is found to be...
journal article 2017
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Dulin, D. (author), Arnold, Jamie J. (author), van Laar, T. (author), Oh, Hyung Suk (author), Lee, Cheri (author), Perkins, Angela L. (author), Harki, Daniel A. (author), Depken, S.M. (author), Cameron, Craig E. (author), Dekker, N.H. (author)
RNA viruses pose a threat to public health that is exacerbated by the dearth of antiviral therapeutics. The RNA-dependent RNA polymerase (RdRp) holds promise as a broad-spectrum, therapeutic target because of the conserved nature of the nucleotide-substrate-binding and catalytic sites. Conventional, quantitative, kinetic analysis of antiviral...
journal article 2017
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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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Vlijm, R. (author), Lee, M. (author), Lipfert, J. (author), Lusser, A. (author), Dekker, C. (author), Dekker, N.H. (author)
DNA wrapping around histone octamers generates nucleosomes, the basic compaction unit of eukaryotic chromatin. Nucleosome stability is carefully tuned to maintain DNA accessibility in transcription, replication, and repair. Using freely orbiting magnetic tweezers, which measure the twist and length of single DNA molecules, we monitor the real...
journal article 2015
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Lipfert, J. (author), van Oene, M.M. (author), Lee, M. (author), Pedaci, F. (author), Dekker, N.H. (author)
journal article 2015
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Lee, M. (author), Lipfert, J. (author), Sanchez, H. (author), Wyman, C. (author), Dekker, N.H. (author)
Human RAD51 is a key protein in the repair of DNA by homologous recombination. Its assembly onto DNA, which induces changes in DNA structure, results in the formation of a nucleoprotein filament that forms the basis of strand exchange. Here, we determine the structural and mechanical properties of RAD51-dsDNA filaments. Our measurements use two...
journal article 2013
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