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High Spatiotemporal-Resolution Magnetic Tweezers: Calibration and Applications for DNA Dynamics

Biophysical journal, 2015-11, Vol.109 (10), p.2113-2125

2015

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Chromatin fibers stabilize nucleosomes under torsional stress

Nature communications, 2020-01, Vol.11 (1), p.126-126, Article 126

2020

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Single-molecule investigations of the stringent response machinery in living bacterial cells

Proceedings of the National Academy of Sciences - PNAS, 2011-08, Vol.108 (31), p.E365-E373

2011

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Origin of the electrophoretic force on DNA in solid-state nanopores

Nature physics, 2009-05, Vol.5 (5), p.347-351

2009

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Magnetic torque tweezers: measuring torsional stiffness in DNA and RecA-DNA filaments

Nature methods, 2010-12, Vol.7 (12), p.977

2010

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Automated cell counting for Trypan blue-stained cell cultures using machine learning

PloS one, 2023-11, Vol.18 (11), p.e0291625-e0291625

2023

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Studying genomic processes at the single-molecule level: introducing the tools and applications

Nature reviews. Genetics, 2013-01, Vol.14 (1), p.9

2013

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Double-stranded RNA under force and torque: Similarities to and striking differences from double-stranded DNA

Proceedings of the National Academy of Sciences - PNAS, 2014-10, Vol.111 (43), p.15408-15413

2014

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Salt Dependence of Ion Transport and DNA Translocation through Solid-State Nanopores

Nano letters, 2006-01, Vol.6 (1), p.89-95

2006

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Freely orbiting magnetic tweezers to directly monitor changes in the twist of nucleic acids

Nature communications, 2011-08, Vol.2 (1), p.439-439, Article 439

2011

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Nucleotide binding halts diffusion of the eukaryotic replicative helicase during activation

Nature communications, 2023-04, Vol.14 (1), p.2082-2082, Article 2082

2023

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A chromatinized origin reduces the mobility of ORC and MCM through interactions and spatial constraint

Nature communications, 2023-10, Vol.14 (1), p.6735-6735, Article 6735

2023

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CAF-1 deposits newly synthesized histones during DNA replication using distinct mechanisms on the leading and lagging strands

Nucleic acids research, 2023-05, Vol.51 (8), p.3770

2023

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DNA replication origins retain mobile licensing proteins

Nature communications, 2021-03, Vol.12 (1), p.1908-1908, Article 1908

2021

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Distinguishing Single- and Double-Stranded Nucleic Acid Molecules Using Solid-State Nanopores

Nano letters, 2009-08, Vol.9 (8), p.2953-2960

2009

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Modification of the histone tetramer at the H3-H3 interface impacts tetrasome conformations and dynamics

The Journal of chemical physics, 2018-03, Vol.148 (12), p.123323

2018

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Nucleosome Assembly Dynamics Involve Spontaneous Fluctuations in the Handedness of Tetrasomes

Cell reports (Cambridge), 2015-01, Vol.10 (2), p.216-225

2015

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Elongation-Competent Pauses Govern the Fidelity of a Viral RNA-Dependent RNA Polymerase

Cell reports (Cambridge), 2015-02, Vol.10 (6), p.983-992

2015

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Quantifying the Precision of Single-Molecule Torque and Twist Measurements Using Allan Variance

Biophysical journal, 2018-04, Vol.114 (8), p.1970-1979

2018

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Optimizing single-molecule experimental approaches for the study of complex protein assemblies on DNA

Biophysical journal, 2023-02, Vol.122 (3), p.327a-327a

Dekker, Nynke H.

2023

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Signatures of Nucleotide Analog Incorporation by an RNA-Dependent RNA Polymerase Revealed Using High-Throughput Magnetic Tweezers

Cell reports (Cambridge), 2017-10, Vol.21 (4), p.1063-1076

2017

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Hysteresis in DNA compaction by Dps is described by an Ising model

Proceedings of the National Academy of Sciences - PNAS, 2016-05, Vol.113 (18), p.4982-4987

2016

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Friction and torque govern the relaxation of DNA supercoils by eukaryotic topoisomerase IB

Nature, 2005-03, Vol.434 (7033), p.671-674

2005

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Slow unloading leads to DNA-bound β2-sliding clamp accumulation in live Escherichia coli cells

Nature communications, 2014-12, Vol.5 (1), p.5820-5820, Article 5820

2014

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Comparing the Assembly and Handedness Dynamics of (H3.3-H4)2 Tetrasomes to Canonical Tetrasomes

PloS one, 2015-10, Vol.10 (10), p.e0141267-e0141267

2015

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High Spatiotemporal-Resolution Magnetic Tweezers: Calibration and Applications for DNA Dynamics

Chromatin fibers stabilize nucleosomes under torsional stress

Single-molecule investigations of the stringent response machinery in living bacterial cells

Origin of the electrophoretic force on DNA in solid-state nanopores

Magnetic torque tweezers: measuring torsional stiffness in DNA and RecA-DNA filaments

Automated cell counting for Trypan blue-stained cell cultures using machine learning

Studying genomic processes at the single-molecule level: introducing the tools and applications

Double-stranded RNA under force and torque: Similarities to and striking differences from double-stranded DNA

Salt Dependence of Ion Transport and DNA Translocation through Solid-State Nanopores

Freely orbiting magnetic tweezers to directly monitor changes in the twist of nucleic acids

Nucleotide binding halts diffusion of the eukaryotic replicative helicase during activation

A chromatinized origin reduces the mobility of ORC and MCM through interactions and spatial constraint

CAF-1 deposits newly synthesized histones during DNA replication using distinct mechanisms on the leading and lagging strands

DNA replication origins retain mobile licensing proteins

Distinguishing Single- and Double-Stranded Nucleic Acid Molecules Using Solid-State Nanopores

Modification of the histone tetramer at the H3-H3 interface impacts tetrasome conformations and dynamics

Nucleosome Assembly Dynamics Involve Spontaneous Fluctuations in the Handedness of Tetrasomes

Elongation-Competent Pauses Govern the Fidelity of a Viral RNA-Dependent RNA Polymerase

Quantifying the Precision of Single-Molecule Torque and Twist Measurements Using Allan Variance

Optimizing single-molecule experimental approaches for the study of complex protein assemblies on DNA

Signatures of Nucleotide Analog Incorporation by an RNA-Dependent RNA Polymerase Revealed Using High-Throughput Magnetic Tweezers

Hysteresis in DNA compaction by Dps is described by an Ising model

Friction and torque govern the relaxation of DNA supercoils by eukaryotic topoisomerase IB

Slow unloading leads to DNA-bound β2-sliding clamp accumulation in live Escherichia coli cells

Comparing the Assembly and Handedness Dynamics of (H3.3-H4)2 Tetrasomes to Canonical Tetrasomes

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