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Antoine M. van Oijen, PhD - Publications

Affiliations: 
2004-2010 Biological Chemistry and Molecular Pharmacology Harvard Medical School, Boston, MA, United States 
 2010-2014 Zernike Institute for Advanced Materials University of Groningen, Groningen, Netherlands 
 2014- Molecular Horizons University of Wollongong, Keiraville, New South Wales, Australia 
Area:
Molecular microscopy and spectroscopy
Website:
https://scholars.uow.edu.au/display/antoine_van_oijen
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106 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
2022 Mueller SH, Fitschen LJ, Shirbini A, Hamdan SM, Spenkelink LM, van Oijen AM. Rapid single-molecule characterisation of enzymes involved in nucleic-acid metabolism. Nucleic Acids Research. PMID 36321650 DOI: 10.1093/nar/gkac949  0.828
2022 Wilkinson EM, Spenkelink LM, van Oijen AM. Observing protein dynamics during DNA-lesion bypass by the replisome. Frontiers in Molecular Biosciences. 9: 968424. PMID 36213113 DOI: 10.3389/fmolb.2022.968424  0.845
2022 Kaur G, Spenkelink LM, Lewis JS, Jergic S, Dixon NE, van Oijen AM. Production of long linear DNA substrates with site-specific chemical lesions for single-molecule replisome studies. Methods in Enzymology. 672: 299-315. PMID 35934481 DOI: 10.1016/bs.mie.2022.02.022  0.868
2022 Paudel BP, Xu ZQ, Jergic S, Oakley AJ, Sharma N, Brown SHJ, Bouwer JC, Lewis PJ, Dixon NE, van Oijen AM, Ghodke H. Mechanism of transcription modulation by the transcription-repair coupling factor. Nucleic Acids Research. PMID 35641110 DOI: 10.1093/nar/gkac449  0.568
2022 Brown JWP, Alford RG, Walsh JC, Spinney RE, Xu SY, Hertel S, Berengut JF, Spenkelink LM, van Oijen AM, Böcking T, Morris RG, Lee LK. Rapid Exchange of Stably Bound Protein and DNA Cargo on a DNA Origami Receptor. Acs Nano. PMID 35316035 DOI: 10.1021/acsnano.2c00699  0.834
2021 Whinn KS, van Oijen AM, Ghodke H. Single-molecule studies of helicases and translocases in prokaryotic genome-maintenance pathways. Dna Repair. 108: 103229. PMID 34601381 DOI: 10.1016/j.dnarep.2021.103229  0.392
2021 Spinks RR, Spenkelink LM, Dixon NE, van Oijen AM. Single-Molecule Insights Into the Dynamics of Replicative Helicases. Frontiers in Molecular Biosciences. 8: 741718. PMID 34513934 DOI: 10.3389/fmolb.2021.741718  0.845
2021 Spinks RR, Spenkelink LM, Stratmann SA, Xu ZQ, Stamford NPJ, Brown SE, Dixon NE, Jergic S, van Oijen AM. DnaB helicase dynamics in bacterial DNA replication resolved by single-molecule studies. Nucleic Acids Research. PMID 34139009 DOI: 10.1093/nar/gkab493  0.839
2021 Spinks RR, Spenkelink LM, van Oijen AM. Single-Molecule Fluorescence Methods to Study Protein Exchange Kinetics in Supramolecular Complexes. Methods in Molecular Biology (Clifton, N.J.). 2281: 49-65. PMID 33847951 DOI: 10.1007/978-1-0716-1290-3_3  0.788
2021 Henrikus SS, van Oijen AM, Robinson A. Single-molecule fluorescence microscopy reveals modulation of DNA polymerase IV-binding lifetimes by UmuD (K97A) and UmuD'. Current Genetics. PMID 33386487 DOI: 10.1007/s00294-020-01134-3  0.522
2020 Schauer GD, Spenkelink LM, Lewis JS, Yurieva O, Mueller SH, van Oijen AM, O'Donnell ME. Replisome bypass of a protein-based R-loop block by Pif1. Proceedings of the National Academy of Sciences of the United States of America. PMID 33199603 DOI: 10.1073/pnas.2020189117  0.778
2020 Henrikus SS, Henry C, McGrath AE, Jergic S, McDonald JP, Hellmich Y, Bruckbauer ST, Ritger ML, Cherry ME, Wood EA, Pham PT, Goodman MF, Woodgate R, Cox MM, van Oijen AM, et al. Single-molecule live-cell imaging reveals RecB-dependent function of DNA polymerase IV in double strand break repair. Nucleic Acids Research. PMID 32687193 DOI: 10.1093/Nar/Gkaa597  0.449
2020 Monachino E, Jergic S, Lewis JS, Xu ZQ, Lo ATY, O'Shea VL, Berger JM, Dixon NE, van Oijen AM. A Primase-Induced Conformational Switch Controls the Stability of the Bacterial Replisome. Molecular Cell. PMID 32464091 DOI: 10.1016/J.Molcel.2020.04.037  0.696
2020 Dubiel K, Henry C, Spenkelink LM, Kozlov AG, Wood EA, Jergic S, Dixon NE, van Oijen AM, Cox MM, Lohman TM, Sandler SJ, Keck JL. Development of a single-stranded DNA-binding protein fluorescent fusion toolbox. Nucleic Acids Research. PMID 32374866 DOI: 10.1093/Nar/Gkaa320  0.861
2020 Zhong Y, Paudel BP, Ryan DP, Low JKK, Franck C, Patel K, Bedward MJ, Torrado M, Payne RJ, van Oijen AM, Mackay JP. CHD4 slides nucleosomes by decoupling entry- and exit-side DNA translocation. Nature Communications. 11: 1519. PMID 32251276 DOI: 10.1038/S41467-020-15183-2  0.469
2020 Ghodke H, Ho HN, van Oijen AM. Single-molecule live-cell imaging visualizes parallel pathways of prokaryotic nucleotide excision repair. Nature Communications. 11: 1477. PMID 32198385 DOI: 10.1038/S41467-020-15179-Y  0.347
2020 Ho HN, van Oijen AM, Ghodke H. Single-molecule imaging reveals molecular coupling between transcription and DNA repair machinery in live cells. Nature Communications. 11: 1478. PMID 32198374 DOI: 10.1038/S41467-020-15182-3  0.417
2019 Mueller SH, Spenkelink LM, van Oijen AM, Lewis JS. Design of customizable long linear DNA substrates with controlled end modifications for single-molecule studies. Analytical Biochemistry. 113541. PMID 31870680 DOI: 10.1016/J.Ab.2019.113541  0.851
2019 Lewis JS, Spenkelink LM, Schauer GD, Yurieva O, Mueller SH, Natarajan V, Kaur G, Maher C, Kay C, O'Donnell ME, van Oijen AM. Tunability of DNA Polymerase Stability during Eukaryotic DNA Replication. Molecular Cell. PMID 31704183 DOI: 10.1016/J.Molcel.2019.10.005  0.844
2019 Romero ZJ, Armstrong TJ, Henrikus SS, Chen SH, Glass DJ, Ferrazzoli AE, Wood EA, Chitteni-Pattu S, van Oijen AM, Lovett ST, Robinson A, Cox MM. Frequent template switching in postreplication gaps: suppression of deleterious consequences by the Escherichia coli Uup and RadD proteins. Nucleic Acids Research. PMID 31665437 DOI: 10.1093/Nar/Gkz960  0.453
2019 Whinn KS, Kaur G, Lewis JS, Schauer GD, Mueller SH, Jergic S, Maynard H, Gan ZY, Naganbabu M, Bruchez MP, O'Donnell ME, Dixon NE, van Oijen AM, Ghodke H. Nuclease dead Cas9 is a programmable roadblock for DNA replication. Scientific Reports. 9: 13292. PMID 31527759 DOI: 10.1038/S41598-019-49837-Z  0.716
2019 Ho HN, Zalami D, Köhler J, van Oijen AM, Ghodke H. Identification of Multiple Kinetic Populations of DNA-Binding Proteins in Live Cells. Biophysical Journal. PMID 31383358 DOI: 10.1016/J.Bpj.2019.07.015  0.315
2019 Mueller SH, Spenkelink LM, van Oijen AM. When proteins play tag: the dynamic nature of the replisome. Biophysical Reviews. PMID 31273608 DOI: 10.1007/S12551-019-00569-4  0.846
2019 Spenkelink LM, Lewis JS, Jergic S, Xu ZQ, Robinson A, Dixon NE, van Oijen AM. Recycling of single-stranded DNA-binding protein by the bacterial replisome. Nucleic Acids Research. PMID 30767010 DOI: 10.1093/Nar/Gkz090  0.874
2019 Ghodke H, Paudel BP, Lewis JS, Jergic S, Gopal K, Romero ZJ, Wood EA, Woodgate R, Cox MM, van Oijen AM. Spatial and temporal organization of RecA in the DNA-damage response. Elife. 8. PMID 30717823 DOI: 10.7554/Elife.42761  0.475
2019 Kaur G, Lewis JS, van Oijen AM. Shining a Spotlight on DNA: Single-Molecule Methods to Visualise DNA. Molecules (Basel, Switzerland). 24. PMID 30704053 DOI: 10.3390/molecules24030491  0.566
2019 Henrikus SS, Henry C, Ghodke H, Wood EA, Mbele N, Saxena R, Basu U, van Oijen AM, Cox MM, Robinson A. RecFOR epistasis group: RecF and RecO have distinct localizations and functions in Escherichia coli. Nucleic Acids Research. PMID 30657965 DOI: 10.1093/Nar/Gkz003  0.505
2018 van Oijen AM, Duderstadt KE, Xiao J, Fishel R. Special Issue on Plasticity of Multi-Protein Complexes. Journal of Molecular Biology. PMID 30102893 DOI: 10.1016/J.Jmb.2018.08.008  0.373
2018 Monachino E, Ghodke H, Spinks RR, Hoatson BS, Jergic S, Xu ZQ, Dixon NE, van Oijen AM. Design of DNA rolling-circle templates with controlled fork topology to study mechanisms of DNA replication. Analytical Biochemistry. PMID 30016625 DOI: 10.1016/J.Ab.2018.07.008  0.848
2018 Henrikus SS, van Oijen AM, Robinson A. Specialised DNA polymerases in Escherichia coli: roles within multiple pathways. Current Genetics. PMID 29700578 DOI: 10.1007/s00294-018-0840-x  0.432
2018 Belfiore L, Spenkelink LM, Ranson M, van Oijen AM, Vine KL. Quantification of ligand density and stoichiometry on the surface of liposomes using single-molecule fluorescence imaging. Journal of Controlled Release : Official Journal of the Controlled Release Society. PMID 29577949 DOI: 10.1016/J.Jconrel.2018.03.022  0.749
2018 Henrikus SS, Wood EA, McDonald JP, Cox MM, Woodgate R, Goodman MF, van Oijen AM, Robinson A. DNA polymerase IV primarily operates outside of DNA replication forks in Escherichia coli. Plos Genetics. 14: e1007161. PMID 29351274 DOI: 10.1371/Journal.Pgen.1007161  0.524
2017 Ghodke H, Lewis JS, van Oijen AM. Resolving the Gordian Knot: Srs2 Strips Intermediates Formed during Homologous Recombination. Trends in Biochemical Sciences. PMID 29290471 DOI: 10.1016/J.Tibs.2017.12.004  0.377
2017 Ghodke H, Ho H, van Oijen AM. Single-molecule live-cell imaging of bacterial DNA repair and damage tolerance. Biochemical Society Transactions. PMID 29196610 DOI: 10.1042/Bst20170055  0.45
2017 Lewis JS, Spenkelink LM, Schauer GD, Hill FR, Georgescu RE, O'Donnell ME, van Oijen AM. Single-molecule visualization of Saccharomyces cerevisiae leading-strand synthesis reveals dynamic interaction between MTC and the replisome. Proceedings of the National Academy of Sciences of the United States of America. PMID 28923950 DOI: 10.1073/Pnas.1711291114  0.836
2017 Hill FR, Monachino E, van Oijen AM. The more the merrier: high-throughput single-molecule techniques. Biochemical Society Transactions. 45: 759-769. PMID 28620037 DOI: 10.1042/BST20160137  0.333
2017 Lewis JS, Spenkelink LM, Jergic S, Wood EA, Monachino E, Horan NP, Duderstadt KE, Cox MM, Robinson A, Dixon NE, van Oijen AM. Single-molecule visualization of fast polymerase turnover in the bacterial replisome. Elife. 6. PMID 28432790 DOI: 10.7554/Elife.23932  0.867
2016 Monachino E, Spenkelink LM, van Oijen AM. Watching cellular machinery in action, one molecule at a time. The Journal of Cell Biology. PMID 27979907 DOI: 10.1083/Jcb.201610025  0.789
2016 Duderstadt KE, Geertsema HJ, Stratmann SA, Punter CM, Kulczyk AW, Richardson CC, van Oijen AM. Simultaneous Real-Time Imaging of Leading and Lagging Strand Synthesis Reveals the Coordination Dynamics of Single Replisomes. Molecular Cell. PMID 27889453 DOI: 10.1016/J.Molcel.2016.10.028  0.53
2016 Åberg C, Duderstadt KE, van Oijen AM. Stability versus exchange: a paradox in DNA replication. Nucleic Acids Research. PMID 27112565 DOI: 10.1093/nar/gkw296  0.4
2016 Jaszczur M, Bertram JG, Robinson A, van Oijen AM, Woodgate R, Cox MM, Goodman MF. Mutations for Worse or Better: Low-Fidelity DNA Synthesis by SOS DNA Polymerase V Is a Tightly Regulated Double-Edged Sword. Biochemistry. 55: 2309-18. PMID 27043933 DOI: 10.1021/Acs.Biochem.6B00117  0.477
2015 Stratmann S, Morrone S, van Oijen AM, Sohn J. The innate immune sensor IFI16 recognizes foreign DNA in the nucleus by scanning along the duplex. Elife. 4. PMID 26673078 DOI: 10.7554/eLife.11721  0.428
2015 van Oijen AM, Dixon NE. Probing molecular choreography through single-molecule biochemistry. Nature Structural & Molecular Biology. 22: 948-52. PMID 26643847 DOI: 10.1038/Nsmb.3119  0.584
2015 Robinson A, McDonald JP, Caldas VE, Patel M, Wood EA, Punter CM, Ghodke H, Cox MM, Woodgate R, Goodman MF, van Oijen AM. Regulation of Mutagenic DNA Polymerase V Activation in Space and Time. Plos Genetics. 11: e1005482. PMID 26317348 DOI: 10.1371/Journal.Pgen.1005482  0.399
2015 Geertsema HJ, Duderstadt KE, van Oijen AM. Single-molecule observation of prokaryotic DNA replication. Methods in Molecular Biology (Clifton, N.J.). 1300: 219-38. PMID 25916715 DOI: 10.1007/978-1-4939-2596-4_14  0.543
2015 Geertsema HJ, Schulte AC, Spenkelink LM, McGrath WJ, Morrone SR, Sohn J, Mangel WF, Robinson A, van Oijen AM. Single-molecule imaging at high fluorophore concentrations by local activation of dye. Biophysical Journal. 108: 949-56. PMID 25692599 DOI: 10.1016/J.Bpj.2014.12.019  0.806
2014 Otterstrom JJ, Brandenburg B, Koldijk MH, Juraszek J, Tang C, Mashaghi S, Kwaks T, Goudsmit J, Vogels R, Friesen RH, van Oijen AM. Relating influenza virus membrane fusion kinetics to stoichiometry of neutralizing antibodies at the single-particle level. Proceedings of the National Academy of Sciences of the United States of America. 111: E5143-8. PMID 25404330 DOI: 10.1073/Pnas.1411755111  0.746
2014 Graham TG, Wang X, Song D, Etson CM, van Oijen AM, Rudner DZ, Loparo JJ. ParB spreading requires DNA bridging. Genes & Development. 28: 1228-38. PMID 24829297 DOI: 10.1101/Gad.242206.114  0.856
2014 Geertsema HJ, Kulczyk AW, Richardson CC, van Oijen AM. Single-molecule studies of polymerase dynamics and stoichiometry at the bacteriophage T7 replication machinery. Proceedings of the National Academy of Sciences of the United States of America. 111: 4073-8. PMID 24591606 DOI: 10.1073/Pnas.1402010111  0.584
2014 Stratmann SA, van Oijen AM. DNA replication at the single-molecule level. Chemical Society Reviews. 43: 1201-20. PMID 24395040 DOI: 10.1039/c3cs60391a  0.546
2014 Duderstadt KE, Reyes-Lamothe R, van Oijen AM, Sherratt DJ. Replication-fork dynamics. Cold Spring Harbor Perspectives in Biology. 6. PMID 23881939 DOI: 10.1101/cshperspect.a010157  0.39
2013 Brandenburg B, Koudstaal W, Goudsmit J, Klaren V, Tang C, Bujny MV, Korse HJ, Kwaks T, Otterstrom JJ, Juraszek J, van Oijen AM, Vogels R, Friesen RH. Mechanisms of hemagglutinin targeted influenza virus neutralization. Plos One. 8: e80034. PMID 24348996 DOI: 10.1371/Journal.Pone.0080034  0.72
2013 Geertsema HJ, van Oijen AM. A single-molecule view of DNA replication: the dynamic nature of multi-protein complexes revealed. Current Opinion in Structural Biology. 23: 788-93. PMID 23890728 DOI: 10.1016/j.sbi.2013.06.018  0.534
2013 Robinson A, van Oijen AM. Bacterial replication, transcription and translation: mechanistic insights from single-molecule biochemical studies. Nature Reviews. Microbiology. 11: 303-15. PMID 23549067 DOI: 10.1038/nrmicro2994  0.4
2013 Jergic S, Horan NP, Elshenawy MM, Mason CE, Urathamakul T, Ozawa K, Robinson A, Goudsmits JM, Wang Y, Pan X, Beck JL, van Oijen AM, Huber T, Hamdan SM, Dixon NE. A direct proofreader-clamp interaction stabilizes the Pol III replicase in the polymerization mode. The Embo Journal. 32: 1322-33. PMID 23435564 DOI: 10.1038/Emboj.2012.347  0.706
2013 Otterstrom J, van Oijen AM. Visualization of membrane fusion, one particle at a time. Biochemistry. 52: 1654-68. PMID 23421412 DOI: 10.1021/Bi301573W  0.753
2012 Yardimci H, Wang X, Loveland AB, Tappin I, Rudner DZ, Hurwitz J, van Oijen AM, Walter JC. Bypass of a protein barrier by a replicative DNA helicase. Nature. 492: 205-9. PMID 23201686 DOI: 10.1038/Nature11730  0.858
2012 Quessada-Vial A, van Oijen AM. How DNA-repair proteins find their targets. Proceedings of the National Academy of Sciences of the United States of America. 109: 18243-4. PMID 23112194 DOI: 10.1073/pnas.1215845109  0.43
2012 Leith JS, Tafvizi A, Huang F, Uspal WE, Doyle PS, Fersht AR, Mirny LA, van Oijen AM. Sequence-dependent sliding kinetics of p53. Proceedings of the National Academy of Sciences of the United States of America. 109: 16552-7. PMID 23012405 DOI: 10.1073/Pnas.1120452109  0.8
2012 Loveland AB, Habuchi S, Walter JC, van Oijen AM. A general approach to break the concentration barrier in single-molecule imaging. Nature Methods. 9: 987-92. PMID 22961247 DOI: 10.1038/Nmeth.2174  0.815
2012 Quessada-Vial A, van Oijen AM. Spotting the mistakes, one molecule at a time. Structure (London, England : 1993). 20: 1130-2. PMID 22770368 DOI: 10.1016/j.str.2012.06.007  0.501
2012 Yardimci H, Loveland AB, van Oijen AM, Walter JC. Single-molecule analysis of DNA replication in Xenopus egg extracts. Methods (San Diego, Calif.). 57: 179-86. PMID 22503776 DOI: 10.1016/J.Ymeth.2012.03.033  0.856
2012 Ivanovic T, Rozendaal R, Floyd DL, Popovic M, van Oijen AM, Harrison SC. Kinetics of proton transport into influenza virions by the viral M2 channel. Plos One. 7: e31566. PMID 22412838 DOI: 10.1371/Journal.Pone.0031566  0.647
2011 Fu YV, Yardimci H, Long DT, Ho TV, Guainazzi A, Bermudez VP, Hurwitz J, van Oijen A, Schärer OD, Walter JC. Selective bypass of a lagging strand roadblock by the eukaryotic replicative DNA helicase. Cell. 146: 931-41. PMID 21925316 DOI: 10.1016/J.Cell.2011.07.045  0.531
2011 Satapathy AK, Kulczyk AW, Ghosh S, van Oijen AM, Richardson CC. Coupling dTTP hydrolysis with DNA unwinding by the DNA helicase of bacteriophage T7. The Journal of Biological Chemistry. 286: 34468-78. PMID 21840995 DOI: 10.1074/Jbc.M111.283796  0.494
2011 Akabayov B, Kulczyk AW, Akabayov SR, Theile C, McLaughlin LW, Beauchamp B, van Oijen AM, Richardson CC. Pyrovanadolysis, a pyrophosphorolysis-like reaction mediated by pyrovanadate, Mn2+, and DNA polymerase of bacteriophage T7. The Journal of Biological Chemistry. 286: 29146-57. PMID 21697085 DOI: 10.1074/Jbc.M111.250944  0.42
2011 Tafvizi A, Mirny LA, van Oijen AM. Dancing on DNA: kinetic aspects of search processes on DNA. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 12: 1481-9. PMID 21560221 DOI: 10.1002/Cphc.201100112  0.845
2011 Tanner NA, Tolun G, Loparo JJ, Jergic S, Griffith JD, Dixon NE, van Oijen AM. E. coli DNA replication in the absence of free β clamps. The Embo Journal. 30: 1830-40. PMID 21441898 DOI: 10.1038/Emboj.2011.84  0.853
2011 Loparo JJ, Kulczyk AW, Richardson CC, van Oijen AM. Simultaneous single-molecule measurements of phage T7 replisome composition and function reveal the mechanism of polymerase exchange. Proceedings of the National Academy of Sciences of the United States of America. 108: 3584-9. PMID 21245349 DOI: 10.1073/Pnas.1018824108  0.778
2011 Tafvizi A, Huang F, Fersht AR, Mirny LA, van Oijen AM. A single-molecule characterization of p53 search on DNA. Proceedings of the National Academy of Sciences of the United States of America. 108: 563-8. PMID 21178072 DOI: 10.1073/Pnas.1016020107  0.821
2011 van Oijen AM. Single-molecule approaches to characterizing kinetics of biomolecular interactions. Current Opinion in Biotechnology. 22: 75-80. PMID 21036593 DOI: 10.1016/j.copbio.2010.10.002  0.309
2011 Lebofsky R, van Oijen AM, Walter JC. DNA is a co-factor for its own replication in Xenopus egg extracts. Nucleic Acids Research. 39: 545-55. PMID 20861001 DOI: 10.1093/Nar/Gkq739  0.459
2011 Williams K, Grafe B, Burke KM, Tanner N, Van Oijen AM, Loparo J, Price AC. A single molecule DNA flow stretching microscope for undergraduates American Journal of Physics. 79: 1112-1120. DOI: 10.1119/1.3620410  0.829
2011 Salentijn GI, Van Dijk M, Geertsema HJ, Jellema LJC, Van Oijen AM, Verpoorte E. DNA purification in continuous nanoliter flows using flowinduced electrokinetic trapping: Influence of ionic strength and chip conditioning 15th International Conference On Miniaturized Systems For Chemistry and Life Sciences 2011, Microtas 2011. 2: 987-989.  0.343
2010 Yardimci H, Loveland AB, Habuchi S, van Oijen AM, Walter JC. Uncoupling of sister replisomes during eukaryotic DNA replication. Molecular Cell. 40: 834-40. PMID 21145490 DOI: 10.1016/J.Molcel.2010.11.027  0.849
2010 Floyd DL, Harrison SC, van Oijen AM. Analysis of kinetic intermediates in single-particle dwell-time distributions. Biophysical Journal. 99: 360-6. PMID 20643053 DOI: 10.1016/J.Bpj.2010.04.049  0.664
2010 Tanner NA, van Oijen AM. Visualizing DNA replication at the single-molecule level. Methods in Enzymology. 475: 259-78. PMID 20627161 DOI: 10.1016/S0076-6879(10)75011-4  0.822
2010 van Oijen AM, Loparo JJ. Single-molecule studies of the replisome. Annual Review of Biophysics. 39: 429-48. PMID 20462378 DOI: 10.1146/annurev.biophys.093008.131327  0.805
2010 Hamdan SM, van Oijen AM. Timing, coordination, and rhythm: acrobatics at the DNA replication fork. The Journal of Biological Chemistry. 285: 18979-83. PMID 20382733 DOI: 10.1074/jbc.R109.022939  0.541
2010 Satapathy AK, Kochaniak AB, Mukherjee S, Crampton DJ, van Oijen A, Richardson CC. Residues in the central beta-hairpin of the DNA helicase of bacteriophage T7 are important in DNA unwinding. Proceedings of the National Academy of Sciences of the United States of America. 107: 6782-7. PMID 20351255 DOI: 10.1073/Pnas.1002734107  0.482
2010 Kulczyk AW, Tanner NA, Loparo JJ, Richardson CC, van Oijen AM. Direct observation of enzymes replicating DNA using a single-molecule DNA stretching assay. Journal of Visualized Experiments : Jove. PMID 20332766 DOI: 10.3791/1689  0.86
2010 Etson CM, Hamdan SM, Richardson CC, van Oijen AM. Thioredoxin suppresses microscopic hopping of T7 DNA polymerase on duplex DNA. Proceedings of the National Academy of Sciences of the United States of America. 107: 1900-5. PMID 20080681 DOI: 10.1073/Pnas.0912664107  0.844
2010 Floyd DL, Otterstrom JJ, Skehel JJ, Harrison SC, Van Oijen AM. Visualizing viral fusion at the single-particle level in microchannels 14th International Conference On Miniaturized Systems For Chemistry and Life Sciences 2010, Microtas 2010. 2: 1412-1414.  0.769
2009 Tanner NA, Loparo JJ, van Oijen AM. Visualizing Single-molecule DNA Replication with Fluorescence Microscopy. Journal of Visualized Experiments : Jove. PMID 19820685 DOI: 10.3791/1529  0.865
2009 Floyd DL, Harrison SC, van Oijen AM. Method for measurement of viral fusion kinetics at the single particle level. Journal of Visualized Experiments : Jove. PMID 19736545 DOI: 10.3791/1484  0.658
2009 Otterstrom JJ, van Oijen AM. Biochemistry. Nudging through a nucleosome. Science (New York, N.Y.). 325: 547-8. PMID 19644099 DOI: 10.1126/Science.1177311  0.802
2009 Tanner NA, van Oijen AM. Single-molecule observation of prokaryotic DNA replication. Methods in Molecular Biology (Clifton, N.J.). 521: 397-410. PMID 19563119 DOI: 10.1007/978-1-60327-815-7_22  0.779
2009 Kochaniak AB, Habuchi S, Loparo JJ, Chang DJ, Cimprich KA, Walter JC, van Oijen AM. Proliferating cell nuclear antigen uses two distinct modes to move along DNA. The Journal of Biological Chemistry. 284: 17700-10. PMID 19411704 DOI: 10.1074/Jbc.M109.008706  0.779
2009 Tanner NA, Loparo JJ, Hamdan SM, Jergic S, Dixon NE, van Oijen AM. Real-time single-molecule observation of rolling-circle DNA replication. Nucleic Acids Research. 37: e27. PMID 19155275 DOI: 10.1093/Nar/Gkp006  0.873
2009 Hamdan SM, Loparo JJ, Takahashi M, Richardson CC, van Oijen AM. Dynamics of DNA replication loops reveal temporal control of lagging-strand synthesis. Nature. 457: 336-9. PMID 19029884 DOI: 10.1016/J.Bpj.2008.12.3720  0.773
2008 Floyd DL, Ragains JR, Skehel JJ, Harrison SC, van Oijen AM. Single-particle kinetics of influenza virus membrane fusion. Proceedings of the National Academy of Sciences of the United States of America. 105: 15382-7. PMID 18829437 DOI: 10.1073/Pnas.0807771105  0.678
2008 Tanner NA, Hamdan SM, Jergic S, Loscha KV, Schaeffer PM, Dixon NE, van Oijen AM. Single-molecule studies of fork dynamics in Escherichia coli DNA replication. Nature Structural & Molecular Biology. 15: 998. PMID 18769472 DOI: 10.1038/nsmb0908-998a  0.837
2008 Komazin-Meredith G, Mirchev R, Golan DE, van Oijen AM, Coen DM. Hopping of a processivity factor on DNA revealed by single-molecule assays of diffusion. Proceedings of the National Academy of Sciences of the United States of America. 105: 10721-6. PMID 18658237 DOI: 10.1073/Pnas.0802676105  0.508
2008 Tafvizi A, Huang F, Leith JS, Fersht AR, Mirny LA, van Oijen AM. Tumor suppressor p53 slides on DNA with low friction and high stability. Biophysical Journal. 95: L01-3. PMID 18424488 DOI: 10.1529/Biophysj.108.134122  0.82
2008 Tanner NA, Hamdan SM, Jergic S, Loscha KV, Schaeffer PM, Dixon NE, van Oijen AM. Single-molecule studies of fork dynamics in Escherichia coli DNA replication. Nature Structural & Molecular Biology. 15: 170-6. PMID 18223657 DOI: 10.1038/Nsmb.1381  0.827
2007 Hamdan SM, Johnson DE, Tanner NA, Lee JB, Qimron U, Tabor S, van Oijen AM, Richardson CC. Dynamic DNA helicase-DNA polymerase interactions assure processive replication fork movement. Molecular Cell. 27: 539-49. PMID 17707227 DOI: 10.1016/J.Molcel.2007.06.020  0.795
2007 van Oijen AM. Single-molecule studies of complex systems: the replisome. Molecular Biosystems. 3: 117-25. PMID 17245491 DOI: 10.1039/b612545j  0.322
2007 van Oijen AM. Honey, I shrunk the DNA: DNA length as a probe for nucleic-acid enzyme activity. Biopolymers. 85: 144-53. PMID 17083118 DOI: 10.1002/bip.20624  0.529
2006 Blainey PC, van Oijen AM, Banerjee A, Verdine GL, Xie XS. A base-excision DNA-repair protein finds intrahelical lesion bases by fast sliding in contact with DNA. Proceedings of the National Academy of Sciences of the United States of America. 103: 5752-7. PMID 16585517 DOI: 10.1073/Pnas.0509723103  0.785
2006 Lee JB, Hite RK, Hamdan SM, Xie XS, Richardson CC, van Oijen AM. DNA primase acts as a molecular brake in DNA replication. Nature. 439: 621-4. PMID 16452983 DOI: 10.1038/Nature04317  0.661
2006 English BP, Min W, van Oijen AM, Lee KT, Luo G, Sun H, Cherayil BJ, Kou SC, Xie XS. Ever-fluctuating single enzyme molecules: Michaelis-Menten equation revisited. Nature Chemical Biology. 2: 87-94. PMID 16415859 DOI: 10.1038/Nchembio759  0.79
2006 English BP, Min W, van Oijen AM, Lee KT, Luo G, Sun H, Cherayil BJ, Kou SC, Xie XS. Erratum: Ever-fluctuating single enzyme molecules: Michaelis-Menten equation revisited Nature Chemical Biology. 2: 168-168. DOI: 10.1038/Nchembio0306-168  0.779
2003 van Oijen AM, Blainey PC, Crampton DJ, Richardson CC, Ellenberger T, Xie XS. Single-molecule kinetics of lambda exonuclease reveal base dependence and dynamic disorder. Science (New York, N.Y.). 301: 1235-8. PMID 12947199 DOI: 10.1126/Science.1084387  0.8
2001 Matsushita M, Ketelaars M, van Oijen AM, Köhler J, Aartsma TJ, Schmidt J. Spectroscopy on the B850 band of individual light-harvesting 2 complexes of Rhodopseudomonas acidophila. II. Exciton states of an elliptically deformed ring aggregate. Biophysical Journal. 80: 1604-14. PMID 11222321 DOI: 10.1016/S0006-3495(01)76133-4  0.322
2001 Ketelaars M, van Oijen AM, Matsushita M, Köhler J, Schmidt J, Aartsma TJ. Spectroscopy on the B850 band of individual light-harvesting 2 complexes of Rhodopseudomonas acidophila. I. Experiments and Monte Carlo simulations. Biophysical Journal. 80: 1591-603. PMID 11222320 DOI: 10.1016/S0006-3495(01)76132-2  0.33
2000 van Oijen AM, Ketelaars M, Köhler J, Aartsma TJ, Schmidt J. Spectroscopy of individual light-harvesting 2 complexes of Rhodopseudomonas acidophila: diagonal disorder, intercomplex heterogeneity, spectral diffusion, and energy transfer in the B800 band. Biophysical Journal. 78: 1570-7. PMID 10692341 DOI: 10.1016/S0006-3495(00)76709-9  0.38
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