Nynke Hester Dekker - Publications

Affiliations: 
Physics Delft University of Technology, Delft, Zuid-Holland, Netherlands 
Area:
Bionanoscience
Website:
http://nynkedekkerlab.tudelft.nl/about/

108 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Ordu O, Lusser A, Dekker NH. DNA Sequence Is a Major Determinant of Tetrasome Dynamics. Biophysical Journal. PMID 31521330 DOI: 10.1016/j.bpj.2019.07.055  1
2019 Ha S, Tang Y, van Oene MM, Janissen R, Dries RM, Solano B, Adam AJL, Dekker NH. Single-Crystal Rutile TiO Nanocylinders are Highly Effective Transducers of Optical Force and Torque. Acs Photonics. 6: 1255-1265. PMID 31119185 DOI: 10.1021/acsphotonics.9b00220  1
2018 Woodman A, Lee KM, Janissen R, Gong YN, Dekker N, Shih SR, Cameron CE. Predicting Intraserotypic Recombination in Enterovirus 71. Journal of Virology. PMID 30487277 DOI: 10.1128/JVI.02057-18  1
2018 Janissen R, Arens MMA, Vtyurina NN, Rivai Z, Sunday ND, Eslami-Mossallam B, Gritsenko AA, Laan L, de Ridder D, Artsimovitch I, Dekker NH, Abbondanzieri EA, Meyer AS. Global DNA Compaction in Stationary-Phase Bacteria Does Not Affect Transcription. Cell. PMID 30057118 DOI: 10.1016/j.cell.2018.06.049  1
2018 van Oene MM, Dickinson LE, Pedaci F, Köber M, Dulin D, Lipfert J, Dekker NH. Publisher's Note: Biological Magnetometry: Torque on Superparamagnetic Beads in Magnetic Fields [Phys. Rev. Lett. 114, 218301 (2015)]. Physical Review Letters. 120: 259901. PMID 29979053 DOI: 10.1103/PhysRevLett.120.259901  1
2018 van Oene MM, Dickinson LE, Cross B, Pedaci F, Lipfert J, Dekker NH. Corrigendum: Applying torque to the Escherichia coli flagellar motor using magnetic tweezers. Scientific Reports. 8: 46980. PMID 29774888 DOI: 10.1038/srep46980  1
2018 van Oene MM, Ha S, Jager T, Lee M, Pedaci F, Lipfert J, Dekker NH. Quantifying the Precision of Single-Molecule Torque and Twist Measurements Using Allan Variance. Biophysical Journal. 114: 1970-1979. PMID 29694873 DOI: 10.1016/j.bpj.2018.02.039  1
2018 Ordu O, Kremser L, Lusser A, Dekker NH. Modification of the histone tetramer at the H3-H3 interface impacts tetrasome conformations and dynamics. The Journal of Chemical Physics. 148: 123323. PMID 29604863 DOI: 10.1063/1.5009100  1
2017 Berghuis BA, Raducanu VS, Elshenawy MM, Jergic S, Depken M, Dixon NE, Hamdan SM, Dekker NH. What is all this fuss about Tus? Comparison of recent findings from biophysical and biochemical experiments. Critical Reviews in Biochemistry and Molecular Biology. 1-15. PMID 29108427 DOI: 10.1080/10409238.2017.1394264  1
2017 Dulin D, Arnold JJ, van Laar T, Oh HS, Lee C, Perkins AL, Harki DA, Depken M, Cameron CE, Dekker NH. Signatures of Nucleotide Analog Incorporation by an RNA-Dependent RNA Polymerase Revealed Using High-Throughput Magnetic Tweezers. Cell Reports. 21: 1063-1076. PMID 29069588 DOI: 10.1016/j.celrep.2017.10.005  1
2017 de Leeuw R, Brazda P, Charl Moolman M, Kerssemakers JWJ, Solano B, Dekker NH. Measuring In Vivo Protein Dynamics Throughout the Cell Cycle Using Microfluidics. Methods in Molecular Biology (Clifton, N.J.). 1624: 237-252. PMID 28842888 DOI: 10.1007/978-1-4939-7098-8_18  1
2017 Kriegel F, Ermann N, Forbes R, Dulin D, Dekker NH, Lipfert J. Probing the salt dependence of the torsional stiffness of DNA by multiplexed magnetic torque tweezers. Nucleic Acids Research. PMID 28460037 DOI: 10.1093/nar/gkx280  1
2017 van Oene MM, Dickinson LE, Cross B, Pedaci F, Lipfert J, Dekker NH. Applying torque to the Escherichia coli flagellar motor using magnetic tweezers. Scientific Reports. 7: 43285. PMID 28266562 DOI: 10.1038/srep43285  1
2016 Ordu O, Lusser A, Dekker NH. Recent insights from in vitro single-molecule studies into nucleosome structure and dynamics. Biophysical Reviews. 8: 33-49. PMID 28058066 DOI: 10.1007/s12551-016-0212-z  1
2016 Moolman MC, Tiruvadi Krishnan S, Kerssemakers JW, de Leeuw R, Lorent V, Sherratt DJ, Dekker NH. The progression of replication forks at natural replication barriers in live bacteria. Nucleic Acids Research. PMID 27166373 DOI: 10.1093/nar/gkw397  1
2016 Ha S, Janissen R, Ussembayev YY, van Oene MM, Solano B, Dekker NH. Tunable top-down fabrication and functional surface coating of single-crystal titanium dioxide nanostructures and nanoparticles. Nanoscale. PMID 27160731 DOI: 10.1039/c6nr00898d  1
2016 Vtyurina NN, Dulin D, Docter MW, Meyer AS, Dekker NH, Abbondanzieri EA. Hysteresis in DNA compaction by Dps is described by an Ising model. Proceedings of the National Academy of Sciences of the United States of America. PMID 27091987 DOI: 10.1073/pnas.1521241113  1
2016 Berghuis BA, Köber M, van Laar T, Dekker NH. High-throughput, high-force probing of DNA-protein interactions with magnetic tweezers. Methods (San Diego, Calif.). PMID 27038745 DOI: 10.1016/j.ymeth.2016.03.025  1
2015 Dulin D, Cui TJ, Cnossen J, Docter MW, Lipfert J, Dekker NH. High Spatiotemporal-Resolution Magnetic Tweezers: Calibration and Applications for DNA Dynamics. Biophysical Journal. 109: 2113-25. PMID 26588570 DOI: 10.1016/j.bpj.2015.10.018  1
2015 Vlijm R, Lee M, Ordu O, Boltengagen A, Lusser A, Dekker NH, Dekker C. Comparing the Assembly and Handedness Dynamics of (H3.3-H4)2 Tetrasomes to Canonical Tetrasomes. Plos One. 10: e0141267. PMID 26506534 DOI: 10.1371/journal.pone.0141267  1
2015 Dulin D, Vilfan ID, Berghuis BA, Poranen MM, Depken M, Dekker NH. Backtracking behavior in viral RNA-dependent RNA polymerase provides the basis for a second initiation site. Nucleic Acids Research. PMID 26496948 DOI: 10.1093/nar/gkv1098  1
2015 Dulin D, Berghuis BA, Depken M, Dekker NH. Untangling reaction pathways through modern approaches to high-throughput single-molecule force-spectroscopy experiments. Current Opinion in Structural Biology. 34: 116-22. PMID 26434413 DOI: 10.1016/j.sbi.2015.08.007  1
2015 Moolman MC, Kerssemakers JW, Dekker NH. Quantitative Analysis of Intracellular Fluorescent Foci in Live Bacteria. Biophysical Journal. 109: 883-91. PMID 26331246 DOI: 10.1016/j.bpj.2015.07.013  1
2015 Berghuis BA, Dulin D, Xu ZQ, van Laar T, Cross B, Janissen R, Jergic S, Dixon NE, Depken M, Dekker NH. Strand separation establishes a sustained lock at the Tus-Ter replication fork barrier. Nature Chemical Biology. PMID 26147356 DOI: 10.1038/nchembio.1857  1
2015 Tiruvadi Krishnan S, Moolman MC, van Laar T, Meyer AS, Dekker NH. Essential validation methods for E. coli strains created by chromosome engineering. Journal of Biological Engineering. 9: 11. PMID 26140052 DOI: 10.1186/s13036-015-0008-x  1
2015 van Oene MM, Dickinson LE, Pedaci F, Köber M, Dulin D, Lipfert J, Dekker NH. Biological magnetometry: torque on superparamagnetic beads in magnetic fields. Physical Review Letters. 114: 218301. PMID 26066460 DOI: 10.1103/PhysRevLett.114.218301  1
2015 Lipfert J, Wiggin M, Kerssemakers JW, Pedaci F, Dekker NH. Corrigendum: Freely orbiting magnetic tweezers to directly monitor changes in the twist of nucleic acids. Nature Communications. 6: 7192. PMID 26013668 DOI: 10.1038/ncomms8192  1
2015 Dulin D, Vilfan ID, Berghuis BA, Hage S, Bamford DH, Poranen MM, Depken M, Dekker NH. Elongation-Competent Pauses Govern the Fidelity of a Viral RNA-Dependent RNA Polymerase. Cell Reports. PMID 25683720 DOI: 10.1016/j.celrep.2015.01.031  1
2015 Vlijm R, Lee M, Lipfert J, Lusser A, Dekker C, Dekker NH. Nucleosome assembly dynamics involve spontaneous fluctuations in the handedness of tetrasomes. Cell Reports. 10: 216-25. PMID 25578730 DOI: 10.1016/j.celrep.2014.12.022  1
2015 Lipfert J, van Oene MM, Lee M, Pedaci F, Dekker NH. Torque spectroscopy for the study of rotary motion in biological systems. Chemical Reviews. 115: 1449-74. PMID 25541648 DOI: 10.1021/cr500119k  1
2015 Tiruvadi Krishnan S, Moolman MC, van Laar T, Meyer AS, Dekker NH. Essential validation methods for E. coli strains created by chromosome engineering Journal of Biological Engineering. 9. DOI: 10.1186/s13036-015-0008-x  1
2015 Van Oene MM, Dickinson LE, Pedaci F, Köber M, Dulin D, Lipfert J, Dekker NH. Biological magnetometry: Torque on superparamagnetic beads in magnetic fields Physical Review Letters. 114. DOI: 10.1103/PhysRevLett.114.218301  1
2015 Lipfert J, Van Oene MM, Lee M, Pedaci F, Dekker NH. Torque spectroscopy for the study of rotary motion in biological systems Chemical Reviews. 115: 1449-1474. DOI: 10.1021/cr500119k  1
2014 Yu Z, Dulin D, Cnossen J, Köber M, van Oene MM, Ordu O, Berghuis BA, Hensgens T, Lipfert J, Dekker NH. A force calibration standard for magnetic tweezers. The Review of Scientific Instruments. 85: 123114. PMID 25554279 DOI: 10.1063/1.4904148  1
2014 Moolman MC, Krishnan ST, Kerssemakers JW, van den Berg A, Tulinski P, Depken M, Reyes-Lamothe R, Sherratt DJ, Dekker NH. Slow unloading leads to DNA-bound β2-sliding clamp accumulation in live Escherichia coli cells. Nature Communications. 5: 5820. PMID 25520215 DOI: 10.1038/ncomms6820  1
2014 Cnossen JP, Dulin D, Dekker NH. An optimized software framework for real-time, high-throughput tracking of spherical beads Review of Scientific Instruments. 85. PMID 25362408 DOI: 10.1063/1.4898178  1
2014 Lipfert J, Skinner GM, Keegstra JM, Hensgens T, Jager T, Dulin D, Köber M, Yu Z, Donkers SP, Chou FC, Das R, Dekker NH. Double-stranded RNA under force and torque: similarities to and striking differences from double-stranded DNA. Proceedings of the National Academy of Sciences of the United States of America. 111: 15408-13. PMID 25313077 DOI: 10.1073/pnas.1407197111  1
2014 Janissen R, Berghuis BA, Dulin D, Wink M, van Laar T, Dekker NH. Invincible DNA tethers: covalent DNA anchoring for enhanced temporal and force stability in magnetic tweezers experiments. Nucleic Acids Research. 42: e137. PMID 25140010 DOI: 10.1093/nar/gku677  1
2014 Lipfert J, Lee M, Ordu O, Kerssemakers JWJ, Dekker NH. Magnetic tweezers for the measurement of twist and torque Journal of Visualized Experiments : Jove. PMID 24894412 DOI: 10.3791/51503  1
2013 Lee M, Lipfert J, Sanchez H, Wyman C, Dekker NH. Structural and torsional properties of the RAD51-dsDNA nucleoprotein filament Nucleic Acids Research. 41: 7023-7030. PMID 23703213 DOI: 10.1093/nar/gkt425  1
2013 Moolman MC, Huang Z, Krishnan ST, Kerssemakers JW, Dekker NH. Electron beam fabrication of a microfluidic device for studying submicron-scale bacteria. Journal of Nanobiotechnology. 11: 12. PMID 23575419 DOI: 10.1186/1477-3155-11-12  1
2013 Dulin D, Lipfert J, Moolman MC, Dekker NH. Studying genomic processes at the single-molecule level: Introducing the tools and applications Nature Reviews Genetics. 14: 9-22. PMID 23150038 DOI: 10.1038/nrg3316  1
2012 Janssen XJ, Jonsson MP, Plesa C, Soni GV, Dekker C, Dekker NH. Rapid manufacturing of low-noise membranes for nanopore sensors by trans-chip illumination lithography. Nanotechnology. 23: 475302. PMID 23103750 DOI: 10.1088/0957-4484/23/47/475302  1
2012 Janssen XJ, Lipfert J, Jager T, Daudey R, Beekman J, Dekker NH. Electromagnetic torque tweezers: a versatile approach for measurement of single-molecule twist and torque. Nano Letters. 12: 3634-9. PMID 22642488 DOI: 10.1021/nl301330h  1
2012 Pedaci F, Huang Z, van Oene M, Dekker NH. Calibration of the optical torque wrench. Optics Express. 20: 3787-802. PMID 22418136 DOI: 10.1364/OE.20.003787  1
2012 Janssen XJA, Lipfert J, Jager T, Daudey R, Beekman J, Dekker NH. Electromagnetic torque tweezers: A versatile approach for measurement of single-molecule twist and torque Nano Letters. 12: 3634-3639. DOI: 10.1021/nl301330h  1
2011 Lipfert J, Kerssemakers JJW, Rojer M, Dekker NH. A method to track rotational motion for use in single-molecule biophysics Review of Scientific Instruments. 82. PMID 22047303 DOI: 10.1063/1.3650461  1
2011 Lipfert J, Wiggin M, Kerssemakers JWJ, Pedaci F, Dekker NH. Freely orbiting magnetic tweezers to directly monitor changes in the twist of nucleic acids Nature Communications. 2. PMID 21863006 DOI: 10.1038/ncomms1450  1
2011 English BP, Hauryliuk V, Sanamrad A, Tankov S, Dekker NH, Elf J. Single-molecule investigations of the stringent response machinery in living bacterial cells. Proceedings of the National Academy of Sciences of the United States of America. 108: E365-73. PMID 21730169 DOI: 10.1073/pnas.1102255108  1
2011 van den Hout M, Skinner GM, Klijnhout S, Krudde V, Dekker NH. The passage of homopolymeric RNA through small solid-state nanopores. Small (Weinheim An Der Bergstrasse, Germany). 7: 2217-24. PMID 21638785 DOI: 10.1002/smll.201100265  1
2011 Huang Z, Pedaci F, van Oene M, Wiggin MJ, Dekker NH. Electron beam fabrication of birefringent microcylinders. Acs Nano. 5: 1418-27. PMID 21280614 DOI: 10.1021/nn1034108  1
2011 Pedaci F, Huang Z, Van Oene M, Barland S, Dekker NH. Excitable particles in an optical torque wrench Nature Physics. 7: 259-264. DOI: 10.1038/nphys1862  1
2010 van den Hout M, Krudde V, Janssen XJ, Dekker NH. Distinguishable populations report on the interactions of single DNA molecules with solid-state nanopores. Biophysical Journal. 99: 3840-8. PMID 21112309 DOI: 10.1016/j.bpj.2010.10.012  1
2010 Lipfert J, Kerssemakers JWJ, Jager T, Dekker NH. Magnetic torque tweezers: Measuring torsional stiffness in DNA and RecA-DNA filaments Nature Methods. 7: 977-980. PMID 20953173 DOI: 10.1038/nmeth.1520  1
2010 Koster DA, Crut A, Shuman S, Bjornsti MA, Dekker NH. Cellular strategies for regulating DNA supercoiling: a single-molecule perspective. Cell. 142: 519-30. PMID 20723754 DOI: 10.1016/j.cell.2010.08.001  1
2010 Te Velthuis AJW, Kerssemakers JWJ, Lipfert J, Dekker NH. Quantitative guidelines for force calibration through spectral analysis of magnetic tweezers data Biophysical Journal. 99: 1292-1302. PMID 20713015 DOI: 10.1016/j.bpj.2010.06.008  1
2010 Lipfert J, Klijnhout S, Dekker NH. Torsional sensing of small-molecule binding using magnetic tweezers Nucleic Acids Research. 38: 7122-7132. PMID 20624816 DOI: 10.1093/nar/gkq598  1
2010 van den Hout M, Hall AR, Wu MY, Zandbergen HW, Dekker C, Dekker NH. Controlling nanopore size, shape and stability. Nanotechnology. 21: 115304. PMID 20173233 DOI: 10.1088/0957-4484/21/11/115304  1
2010 van den Hout M, Vilfan ID, Hage S, Dekker NH. Direct force measurements on double-stranded RNA in solid-state nanopores. Nano Letters. 10: 701-7. PMID 20050676 DOI: 10.1021/nl903925a  1
2009 Lipfert J, Koster DA, Vilfan ID, Hage S, Dekker NH. Single-molecule magnetic tweezers studies of type IB topoisomerases. Methods in Molecular Biology (Clifton, N.J.). 582: 71-89. PMID 19763943  1
2009 Skinner GM, van den Hout M, Broekmans O, Dekker C, Dekker NH. Distinguishing single- and double-stranded nucleic acid molecules using solid-state nanopores. Nano Letters. 9: 2953-60. PMID 19537802 DOI: 10.1021/nl901370w  1
2009 Lipfert J, Hao X, Dekker NH. Quantitative modeling and optimization of magnetic tweezers Biophysical Journal. 96: 5040-5049. PMID 19527664 DOI: 10.1016/j.bpj.2009.03.055  1
2009 Keyser UF, van der Does J, Dekker C, Dekker NH. Inserting and manipulating DNA in a nanopore with optical tweezers Methods in Molecular Biology (Clifton, N.J.). 544: 95-112. PMID 19488696 DOI: 10.1007/978-1-59745-483-4_8  1
2009 Smeets RMM, Dekker NH, Dekker C. Low-frequency noise in solid-state nanopores Nanotechnology. 20. PMID 19417488 DOI: 10.1088/0957-4484/20/9/095501  1
2009 Smeets RM, Kowalczyk SW, Hall AR, Dekker NH, Dekker C. Translocation of RecA-coated double-stranded DNA through solid-state nanopores. Nano Letters. 9: 3089-96. PMID 19053490 DOI: 10.1021/nl803189k  1
2009 Van Dorp S, Keyser UF, Dekker NH, Dekker C, Lemay SG. Origin of the electrophoretic force on DNA in solid-state nanopores Nature Physics. 5: 347-351. DOI: 10.1038/nphys1230  1
2008 Crut A, Koster DA, Huang Z, Hage S, Dekker NH. Controlling the surface properties of nanostructures for studies of polymerases. Nanotechnology. 19: 465301. PMID 21836239 DOI: 10.1088/0957-4484/19/46/465301  1
2008 Vilfan ID, Candelli A, Hage S, Aalto AP, Poranen MM, Bamford DH, Dekker NH. Reinitiated viral RNA-dependent RNA polymerase resumes replication at a reduced rate. Nucleic Acids Research. 36: 7059-67. PMID 18986997 DOI: 10.1093/nar/gkn836  1
2008 van den Hout M, Hage S, Dekker C, Dekker NH. End-joining long nucleic acid polymers Nucleic Acids Research. 36. PMID 18658247 DOI: 10.1093/nar/gkn442  1
2008 Crut A, Nair PA, Koster DA, Shuman S, Dekker NH. Dynamics of phosphodiester synthesis by DNA ligase. Proceedings of the National Academy of Sciences of the United States of America. 105: 6894-9. PMID 18458338 DOI: 10.1073/pnas.0800113105  1
2008 Koster DA, Czerwinski F, Halby L, Crut A, Vekhoff P, Palle K, Arimondo PB, Dekker NH. Single-molecule observations of topotecan-mediated TopIB activity at a unique DNA sequence. Nucleic Acids Research. 36: 2301-10. PMID 18292117 DOI: 10.1093/nar/gkn035  1
2008 Smeets RMM, Keyser UF, Dekker NH, Dekker C. Noise in solid-state nanopores Proceedings of the National Academy of Sciences of the United States of America. 105: 417-421. PMID 18184817 DOI: 10.1073/pnas.0705349105  1
2007 Vilfan ID, Kamping W, van den Hout M, Candelli A, Hage S, Dekker NH. An RNA toolbox for single-molecule force spectroscopy studies. Nucleic Acids Research. 35: 6625-39. PMID 17905817 DOI: 10.1093/nar/gkm585  1
2007 Crut A, Koster DA, Seidel R, Wiggins CH, Dekker NH. Fast dynamics of supercoiled DNA revealed by single-molecule experiments. Proceedings of the National Academy of Sciences of the United States of America. 104: 11957-62. PMID 17623785 DOI: 10.1073/pnas.0700333104  1
2007 Koster DA, Palle K, Bot ES, Bjornsti MA, Dekker NH. Antitumour drugs impede DNA uncoiling by topoisomerase I. Nature. 448: 213-7. PMID 17589503 DOI: 10.1038/nature05938  1
2007 Besteman K, Hage S, Dekker NH, Lemay SG. Role of tension and twist in single-molecule DNA condensation Physical Review Letters. 98. DOI: 10.1103/PhysRevLett.98.058103  1
2006 Smeets RM, Keyser UF, Wu MY, Dekker NH, Dekker C. Nanobubbles in solid-state nanopores. Physical Review Letters. 97: 088101. PMID 17026338 DOI: 10.1103/PhysRevLett.97.088101  1
2006 Moreno-Herrero F, Seidel R, Johnson SM, Fire A, Dekker NH. Structural analysis of hyperperiodic DNA from Caenorhabditis elegans. Nucleic Acids Research. 34: 3057-66. PMID 16738142 DOI: 10.1093/nar/gkl397  1
2006 Stanley LK, Seidel R, van der Scheer C, Dekker NH, Szczelkun MD, Dekker C. When a helicase is not a helicase: dsDNA tracking by the motor protein EcoR124I. The Embo Journal. 25: 2230-9. PMID 16642041 DOI: 10.1038/sj.emboj.7601104  1
2006 Koster DA, Wiggins CH, Dekker NH. Multiple events on single molecules: unbiased estimation in single-molecule biophysics. Proceedings of the National Academy of Sciences of the United States of America. 103: 1750-5. PMID 16439482 DOI: 10.1073/pnas.0510509103  1
2006 Smeets RM, Keyser UF, Krapf D, Wu MY, Dekker NH, Dekker C. Salt dependence of ion transport and DNA translocation through solid-state nanopores. Nano Letters. 6: 89-95. PMID 16402793 DOI: 10.1021/nl052107w  1
2006 Keyser UF, Van Der Does J, Dekker C, Dekker NH. Optical tweezers for force measurements on DNA in nanopores Review of Scientific Instruments. 77. DOI: 10.1063/1.2358705  1
2006 Keyser UF, Koeleman BN, Van Dorp S, Krapf D, Smeets RMM, Lemay SG, Dekker NH, Dekker C. Direct force measurements on DNA in a solid-state nanopore Nature Physics. 2: 473-477. DOI: 10.1038/nphys344  1
2005 Seidel R, Bloom JG, van Noort J, Dutta CF, Dekker NH, Firman K, Szczelkun MD, Dekker C. Dynamics of initiation, termination and reinitiation of DNA translocation by the motor protein EcoR124I. The Embo Journal. 24: 4188-97. PMID 16292342 DOI: 10.1038/sj.emboj.7600881  1
2005 Keyser UF, Krapf D, Koeleman BN, Smeets RM, Dekker NH, Dekker C. Nanopore tomography of a laser focus. Nano Letters. 5: 2253-6. PMID 16277463 DOI: 10.1021/nl051597p  1
2005 Moreno-Herrero F, Holtzer L, Koster DA, Shuman S, Dekker C, Dekker NH. Atomic force microscopy shows that vaccinia topoisomerase IB generates filaments on DNA in a cooperative fashion Nucleic Acids Research. 33: 5945-5953. PMID 16237128 DOI: 10.1093/nar/gki906  1
2005 Moreno-Herrero F, de Jager M, Dekker NH, Kanaar R, Wyman C, Dekker C. Mesoscale conformational changes in the DNA-repair complex Rad50/Mre11/Nbs1 upon binding DNA. Nature. 437: 440-3. PMID 16163361 DOI: 10.1038/nature03927  1
2005 van der Heijden T, van Noort J, van Leest H, Kanaar R, Wyman C, Dekker NH, Dekker N, Dekker C. Torque-limited RecA polymerization on dsDNA. Nucleic Acids Research. 33: 2099-105. PMID 15824062 DOI: 10.1093/nar/gki512  1
2005 Koster DA, Croquette V, Dekker C, Shuman S, Dekker NH. Friction and torque govern the relaxation of DNA supercoils by eukaryotic topoisomerase IB. Nature. 434: 671-4. PMID 15800630 DOI: 10.1038/nature03395  1
2005 Abels JA, Moreno-Herrero F, Van Der Heijden T, Dekker C, Dekker NH. Single-molecule measurements of the persistence length of double-stranded RNA Biophysical Journal. 88: 2737-2744. PMID 15653727 DOI: 10.1529/biophysj.104.052811  1
2004 Dekker NH, Abels JA, Veenhuizen PT, Bruinink MM, Dekker C. Joining of long double-stranded RNA molecules through controlled overhangs Nucleic Acids Research. 32. PMID 15475386  1
2004 Seidel R, van Noort J, van der Scheer C, Bloom JG, Dekker NH, Dutta CF, Blundell A, Robinson T, Firman K, Dekker C. Real-time observation of DNA translocation by the type I restriction modification enzyme EcoR124I. Nature Structural & Molecular Biology. 11: 838-43. PMID 15300241 DOI: 10.1038/nsmb816  1
2003 Dekker NH, Viard T, Bouthier de La Tour C, Bensimon D, Croquette V. [Enzymes that relax supercoiled DNA]. MéDecine Sciences : M/S. 19: 398-400. PMID 12836207 DOI: 10.1051/medsci/2003194398  1
2003 Dekker NH, Viard T, Bouthier De La Tour C, Duguet M, Bensimon D, Croquette V. Thermophilic topoisomerase I on a single DNA molecule Journal of Molecular Biology. 329: 271-282. PMID 12758075 DOI: 10.1016/S0022-2836(03)00320-6  1
2003 Strick TR, Dessinges MN, Charvin G, Dekker NH, Allemand JF, Bensimon D, Croquette V. Stretching of macromolecules and proteins Reports On Progress in Physics. 66: 1-45. DOI: 10.1088/0034-4885/66/1/201  1
2002 Dekker NH, Rybenkov VV, Duguet M, Crisona NJ, Cozzarelli NR, Bensimon D, Croquette V. The mechanism of type IA topoisomerases. Proceedings of the National Academy of Sciences of the United States of America. 99: 12126-31. PMID 12167668 DOI: 10.1073/pnas.132378799  1
2002 Strick TR, Charvin G, Dekker NH, Allemand JF, Bensimon D, Croquette V. Tracking enzymatic steps of DNA topoisomerases using single-molecule micromanipulation Comptes Rendus Physique. 3: 595-618. DOI: 10.1016/S1631-0705(02)01347-6  1
2000 Dekker NH, Lee CS, Lorent V, Thywissen JH, Smith SP, Drndic M, Westervelt RM, Prentiss M. Guiding neutral atoms on a chip Physical Review Letters. 84: 1124-7. PMID 11017459  1
1998 Johnson KS, Thywissen JH, Dekker NH, Berggren KK, Chu AP, Younkin R, Prentiss M. Localization of metastable atom beams with optical standing waves: nanolithography at the heisenberg limit Science (New York, N.Y.). 280: 1583-6. PMID 9616117 DOI: 10.1126/science.280.5369.1583  1
1998 Thywissen JH, Johnson KS, Dekker NH, Chu AP, Prentiss M. Using neutral atoms and standing light waves to form a calibration artifact for length metrology Journal of Vacuum Science and Technology B: Microelectronics and Nanometer Structures. 16: 3841-3845.  1
1998 Thywissen JH, Johnson KS, Dekker NH, Prentiss M, Wong SS, Weiss K, Grunze M. Metastable-atom-activated growth of an ultrathin carbonaceous resist for reactive ion etching of SiO2 and Si3N4 Journal of Vacuum Science and Technology B: Microelectronics and Nanometer Structures. 16: 1155-1160.  1
1998 Johnson KS, Thywissen JH, Dekker NH, Chu AP, Younkin R, Berggren KK, Prentiss M. Atom lithography using standing-wave quenching Technical Digest - European Quantum Electronics Conference. 166-167.  1
1997 Johnson KS, Berggren KK, Black AJ, Black CT, Chu AP, Dekker NH, Ralph DC, Thywissen JH, Younkin RJ, Prentiss MG, Tinkham M, Whitesides GM. Using neutral metastable argon atoms and contamination lithography to form nanostructures in silicon, silicon dioxide, and gold Proceedings of Spie - the International Society For Optical Engineering. 2995: 97-108. DOI: 10.1117/12.273746  1
1997 Thywissen JH, Johnson KS, Younkin R, Dekker NH, Berggren KK, Chu AP, Prentiss M, Lee SA. Nanofabrication using neutral atomic beams Journal of Vacuum Science and Technology B: Microelectronics and Nanometer Structures. 15: 2093-2100.  1
1996 Bouwmeester D, Karman GP, Dekker NH, Schrama CA, Woerdman JP. Observation of the geometric amplitude factor in an optical system Journal of Modern Optics. 43: 2087-2103.  1
1995 Bouwmeester D, Dekker NH, Dorsselaer FE, Schrama CA, Visser PM, Woerdman JP. Observation of Landau-Zener dynamics in classical optical systems. Physical Review. A. 51: 646-654. PMID 9911626 DOI: 10.1103/PhysRevA.51.646  1
1994 Deshpande MR, Hornbeck ES, Kozodoy P, Dekker NH, Sleight JW, Reed MA, Fernando CL, Frensley WR. Low-dimensional resonant tunnelling and Coulomb blockade: A comparison of fabricated versus impurity confinement Semiconductor Science and Technology. 9: 1919-1924. DOI: 10.1088/0268-1242/9/11S/011  1
1993 Deshpande MR, Dekker NH, Sleight JW, Huber JL, Hornbeck ES, Reed MA, Matyi RJ, Kao YC, Fernando CJL, Frensley WR. Observation of novel conductance structure in GaAs/GaxAl1-xAs resonant tunneling heterostructures Proceedings of the Ieee Cornell Conference On Advanced Concepts in High Speed Semiconductor Devices and Circuits. 177-181.  1
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