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David Dulin - Publications

Affiliations: 
University of Erlangen-Nuremberg, Germany 
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47 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
2024 Dohnalová H, Seifert M, Matoušková E, Klein M, Papini FS, Lipfert J, Dulin D, Lankaš F. Temperature-Dependent Twist of Double-Stranded RNA Probed by Magnetic Tweezer Experiments and Molecular Dynamics Simulations. The Journal of Physical Chemistry. B. PMID 38197365 DOI: 10.1021/acs.jpcb.3c06280  0.354
2023 Dulin D. An Introduction to Magnetic Tweezers. Methods in Molecular Biology (Clifton, N.J.). 2694: 375-401. PMID 37824014 DOI: 10.1007/978-1-0716-3377-9_18  0.304
2022 Chinthapatla R, Sotoudegan M, Srivastava P, Anderson TK, Moustafa IM, Passow KT, Kennelly SA, Moorthy R, Dulin D, Feng JY, Harki DA, Kirchdoerfer RN, Cameron CE, Arnold JJ. Interfering with nucleotide excision by the coronavirus 3'-to-5' exoribonuclease. Nucleic Acids Research. PMID 36546762 DOI: 10.1093/nar/gkac1177  0.326
2022 Chinthapatla R, Sotoudegan M, Anderson T, Moustafa IM, Passow KT, Kennelly SA, Moorthy R, Dulin D, Feng JY, Harki DA, Kirchdoerfer R, Cameron CE, Arnold JJ. Interfering with nucleotide excision by the coronavirus 3'-to-5' exoribonuclease. Biorxiv : the Preprint Server For Biology. PMID 35982684 DOI: 10.1101/2022.08.11.503614  0.326
2022 Bera SC, America PPB, Maatsola S, Seifert M, Ostrofet E, Cnossen J, Spermann M, Papini FS, Depken M, Malinen AM, Dulin D. Quantitative parameters of bacterial RNA polymerase open-complex formation, stabilization and disruption on a consensus promoter. Nucleic Acids Research. 50: 7511-7528. PMID 35819191 DOI: 10.1093/nar/gkac560  0.728
2021 Malinen AM, Bakermans J, Aalto-Setälä E, Blessing M, Bauer DLV, Parilova O, Belogurov GA, Dulin D, Kapanidis AN. Real-Time Single-Molecule Studies of RNA Polymerase-Promoter Open Complex Formation Reveal Substantial Heterogeneity Along the Promoter-Opening Pathway. Journal of Molecular Biology. 434: 167383. PMID 34863780 DOI: 10.1016/j.jmb.2021.167383  0.605
2021 Seifert M, Bera SC, van Nies P, Kirchdoerfer RN, Shannon A, Le TT, Meng X, Xia H, Wood JM, Harris LD, Papini FS, Arnold JJ, Almo S, Grove TL, Shi PY, ... ... Dulin D, et al. Inhibition of SARS-CoV-2 polymerase by nucleotide analogs from a single-molecule perspective. Elife. 10. PMID 34617885 DOI: 10.7554/eLife.70968  0.714
2021 Bera SC, Seifert M, Kirchdoerfer RN, van Nies P, Wubulikasimu Y, Quack S, Papini FS, Arnold JJ, Canard B, Cameron CE, Depken M, Dulin D. The nucleotide addition cycle of the SARS-CoV-2 polymerase. Cell Reports. 109650. PMID 34433083 DOI: 10.1016/j.celrep.2021.109650  0.737
2021 Seifert M, Bera SC, van Nies P, Kirchdoerfer RN, Shannon A, Le TT, Meng X, Xia H, Wood JM, Harris LD, Papini FS, Arnold JJ, Almo SC, Grove TL, Shi PY, ... ... Dulin D, et al. Inhibition of SARS-CoV-2 polymerase by nucleotide analogs: a single molecule perspective. Biorxiv : the Preprint Server For Biology. PMID 33851161 DOI: 10.1101/2020.08.06.240325  0.731
2021 Bera SC, Seifert M, Kirchdoerfer RN, van Nies P, Wubulikasimu Y, Quack S, Papini FS, Arnold JJ, Canard B, Cameron CE, Depken M, Dulin D. The nucleotide addition cycle of the SARS-CoV-2 polymerase. Biorxiv : the Preprint Server For Biology. PMID 33791706 DOI: 10.1101/2021.03.27.437309  0.731
2020 Seifert M, van Nies P, Papini FS, Arnold JJ, Poranen MM, Cameron CE, Depken M, Dulin D. Temperature controlled high-throughput magnetic tweezers show striking difference in activation energies of replicating viral RNA-dependent RNA polymerases. Nucleic Acids Research. PMID 32286652 DOI: 10.1093/Nar/Gkaa233  0.443
2020 Ostrofet E, Papini FS, Dulin D. High spatiotemporal resolution data from a custom magnetic tweezers instrument. Data in Brief. 30: 105397. PMID 32258273 DOI: 10.1016/J.Dib.2020.105397  0.44
2020 Ostrofet E, Stal Papini F, Johnson B, Arnold JJ, Cameron CE, Dulin D. Single-Molecule Magnetic Tweezers Characterization of MTERF1 as a Directional Roadblock Biophysical Journal. 118: 73a. DOI: 10.1016/J.Bpj.2019.11.573  0.384
2020 Bera SC, Seifert M, Ostrofet E, Spermann M, Stal Papini F, Malinen AM, Dulin D. Monovalent Salt Dependence of the Bacterial RNA Polymerase Open Complex Dynamics Biophysical Journal. 118: 542a-543a. DOI: 10.1016/J.Bpj.2019.11.2971  0.721
2019 Papini FS, Seifert M, Dulin D. High-yield fabrication of DNA and RNA constructs for single molecule force and torque spectroscopy experiments. Nucleic Acids Research. PMID 31584079 DOI: 10.1093/Nar/Gkz851  0.464
2018 Ostrofet E, Papini FS, Dulin D. Correction-free force calibration for magnetic tweezers experiments. Scientific Reports. 8: 15920. PMID 30374099 DOI: 10.1038/S41598-018-34360-4  0.369
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  0.554
2018 Dulin D, Bauer DLV, Malinen AM, Bakermans JJW, Kaller M, Morichaud Z, Petushkov I, Depken M, Brodolin K, Kulbachinskiy A, Kapanidis AN. Pausing controls branching between productive and non-productive pathways during initial transcription in bacteria. Nature Communications. 9: 1478. PMID 29662062 DOI: 10.1038/S41467-018-03902-9  0.635
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  0.653
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  0.606
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  0.61
2016 Vtyurina NN, Dulin D, Docter MW, Meyer AS, Dekker NH, Abbondanzieri EA. An Ising Model Describes Hysteresis in a Novel form of Cooperative Binding Biophysical Journal. 110: 239a. DOI: 10.1016/J.Bpj.2015.11.1317  0.569
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  0.635
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  0.645
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  0.63
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  0.578
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  0.612
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  0.63
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  0.519
2015 Vtyurina N, Dulin D, Docter M, Dekker N, Meyer A, Abbondanzieri E. Chromosome Reorganization by the Highly Cooperative Dps Protein Biophysical Journal. 108: 15a. DOI: 10.1016/J.Bpj.2014.11.107  0.608
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  0.585
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  0.577
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  0.666
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  0.613
2014 Cnossen J, Dulin D, Dekker NH. Accurate High Throughput Bright Field Bead Tracking using Gpu Hardware Biophysical Journal. 106: 603a. DOI: 10.1016/J.Bpj.2013.11.3337  0.6
2014 Janissen R, Berghuis BA, Ordu O, Wink MM, Dulin D, Cnossen JP, Dekker NH. Single Molecule Studies of DNA-Binding Proteins: Development of New Covalent DNA Anchoring Techniques for the Study of Rupture Forces of Replication Blocks Biophysical Journal. 106: 394a. DOI: 10.1016/J.Bpj.2013.11.2224  0.647
2014 van Oene M, Dickinson LE, Pedaci F, Lipfert J, Dulin D, Cnossen JP, Docter MW, Dekker NH. Magnetization Properties of Superparamagnetic Beads Biophysical Journal. 106: 393a. DOI: 10.1016/J.Bpj.2013.11.2222  0.596
2014 Koeber M, Yu Z, Aguan K, Berghuis B, Dulin D, Dekker NH. SV40 Helicase Unwinds DNA against Force Biophysical Journal. 106: 273a. DOI: 10.1016/J.Bpj.2013.11.1599  0.614
2014 Berghuis BA, Dulin D, Cross B, Dixon NE, Dekker NH. Roadblocks on the E.Coli Genome: The Workings of a Molecular Mouse Trap at the Single-Molecule Level Biophysical Journal. 106: 230a. DOI: 10.1016/J.Bpj.2013.11.1344  0.622
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  0.582
2013 Dulin D, Vilfan ID, Berghuis BA, Hage S, Bamford DH, Poranen M, Depken M, Dekker NH. Backtracking and Other Off-Path Pauses Control the Dynamic of Viral RNA Dependent RNA Polymerases Biophysical Journal. 104: 364a. DOI: 10.1016/J.Bpj.2012.11.2022  0.653
2013 Lipfert J, Skinner GM, Keegstra J, Hensgens T, Jager T, Dulin D, Donkers S, Dekker NH. Probing the Response of Double-Stranded RNA to Force and Torque at the Single-Molecule Level Biophysical Journal. 104: 1a-2a. DOI: 10.1016/J.Bpj.2012.11.023  0.661
2012 Dulin D, Vilfan I, Depken M, Hage S, Kamping W, Poranen M, Bamford D, Dekker NH. A Magnetic Tweezers Study of a RNA-Dependant RNA Polymerase Biophysical Journal. 102: 286a. DOI: 10.1016/J.Bpj.2011.11.1582  0.66
2012 Lipfert J, Skinner GM, Donkers S, Huang Z, Dulin D, Keegstra JM, Hensgens T, Dekker NH. The Mechanical Properties of Double-Stranded RNA in Response to Force and Torque Biophysical Journal. 102: 275a. DOI: 10.1016/J.Bpj.2011.11.1514  0.669
2011 Le Gall A, Dulin D, Clavier G, Méallet-Renault R, Bouyer P, Perronet K, Westbrook N. Improved photon yield from a green dye with a reducing and oxidizing system. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. 12: 1657-60. PMID 21630412 DOI: 10.1002/Cphc.201100085  0.723
2010 Le Gall A, Perronet K, Dulin D, Villing A, Bouyer P, Visscher K, Westbrook N. Simultaneous calibration of optical tweezers spring constant and position detector response. Optics Express. 18: 26469-74. PMID 21164997 DOI: 10.1364/Oe.18.026469  0.708
2010 Dulin D, Le Gall A, Perronet K, Soler N, Fourmy D, Yoshizawa S, Bouyer P, Westbrook N. Reduced photobleaching of BODIPY-FL Physics Procedia. 3: 1563-1567. DOI: 10.1016/J.Phpro.2010.01.222  0.727
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