A citation-based method for searching scientific literature

Ashley Z Guo, Joshua Lequieu, Juan J de Pablo. J Chem Phys 2019
Times Cited: 3







List of co-cited articles
2 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


In silico evidence for sequence-dependent nucleosome sliding.
Joshua Lequieu, David C Schwartz, Juan J de Pablo. Proc Natl Acad Sci U S A 2017
32
66

Tension-Dependent Free Energies of Nucleosome Unwrapping.
Joshua Lequieu, Andrés Córdoba, David C Schwartz, Juan J de Pablo. ACS Cent Sci 2016
32
66

Nucleosomal stability and dynamics vary significantly when viewed by internal versus terminal labels.
Laimonas Kelbauskas, Jenny Sun, Neal Woodbury, D Lohr. Biochemistry 2008
21
33

Opposing roles of H3- and H4-acetylation in the regulation of nucleosome structure––a FRET study.
Alexander Gansen, Katalin Tóth, Nathalie Schwarz, Jörg Langowski. Nucleic Acids Res 2015
43
33

Performing SELEX experiments in silico.
J A J Wondergem, H Schiessel, M Tompitak. J Chem Phys 2017
9
33

Revealing transient structures of nucleosomes as DNA unwinds.
Yujie Chen, Joshua M Tokuda, Traci Topping, Julie L Sutton, Steve P Meisburger, Suzette A Pabit, Lisa M Gloss, Lois Pollack. Nucleic Acids Res 2014
45
33

A novel roll-and-slide mechanism of DNA folding in chromatin: implications for nucleosome positioning.
Michael Y Tolstorukov, Andrew V Colasanti, David M McCandlish, Wilma K Olson, Victor B Zhurkin. J Mol Biol 2007
151
33

Single-pair FRET microscopy reveals mononucleosome dynamics.
W J A Koopmans, A Brehm, C Logie, T Schmidt, J van Noort. J Fluoresc 2007
79
33

DNA nanomechanics in the nucleosome.
Nils B Becker, Ralf Everaers. Structure 2009
25
33

Kinetics and thermodynamics of phenotype: unwinding and rewinding the nucleosome.
Andrew H Mack, Daniel J Schlingman, Robielyn P Ilagan, Lynne Regan, Simon G J Mochrie. J Mol Biol 2012
31
33

Effect of force on mononucleosomal dynamics.
Shirley Mihardja, Andrew J Spakowitz, Yongli Zhang, Carlos Bustamante. Proc Natl Acad Sci U S A 2006
132
33

Salt-induced DNA-histone complexation.
K K Kunze, R R Netz. Phys Rev Lett 2000
85
33

Effects of charge-modifying mutations in histone H2A α3-domain on nucleosome stability assessed by single-pair FRET and MD simulations.
Kathrin Lehmann, Ruihan Zhang, Nathalie Schwarz, Alexander Gansen, Norbert Mücke, Jörg Langowski, Katalin Toth. Sci Rep 2017
9
33

Fast, long-range, reversible conformational fluctuations in nucleosomes revealed by single-pair fluorescence resonance energy transfer.
Miroslav Tomschik, Haocheng Zheng, Ken van Holde, Jordanka Zlatanova, Sanford H Leuba. Proc Natl Acad Sci U S A 2005
103
33

Nucleosome repositioning via loop formation.
I M Kulić, H Schiessel. Biophys J 2003
48
33

High-resolution dynamic mapping of histone-DNA interactions in a nucleosome.
Michael A Hall, Alla Shundrovsky, Lu Bai, Robert M Fulbright, John T Lis, Michelle D Wang. Nat Struct Mol Biol 2009
248
33



Nucleosomes facilitate their own invasion.
Gu Li, Jonathan Widom. Nat Struct Mol Biol 2004
251
33

Linker histone H1 and H3K56 acetylation are antagonistic regulators of nucleosome dynamics.
Morgan Bernier, Yi Luo, Kingsley C Nwokelo, Michelle Goodwin, Sarah J Dreher, Pei Zhang, Mark R Parthun, Yvonne Fondufe-Mittendorf, Jennifer J Ottesen, Michael G Poirier. Nat Commun 2015
22
33


Designing nucleosomal force sensors.
M Tompitak, L de Bruin, B Eslami-Mossallam, H Schiessel. Phys Rev E 2017
7
33

Theory of nucleosome corkscrew sliding in the presence of synthetic DNA ligands.
Farshid Mohammad-Rafiee, Igor M Kulić, Helmut Schiessel. J Mol Biol 2004
23
33

Structural constraints in collaborative competition of transcription factors against the nucleosome.
Georgette Moyle-Heyrman, Hannah S Tims, Jonathan Widom. J Mol Biol 2011
41
33


spFRET reveals changes in nucleosome breathing by neighboring nucleosomes.
Ruth Buning, Wietske Kropff, Kirsten Martens, John van Noort. J Phys Condens Matter 2015
14
33

Local DNA Sequence Controls Asymmetry of DNA Unwrapping from Nucleosome Core Particles.
Alexander W Mauney, Joshua M Tokuda, Lisa M Gloss, Oscar Gonzalez, Lois Pollack. Biophys J 2018
16
33

Nucleosome accessibility governed by the dimer/tetramer interface.
Vera Böhm, Aaron R Hieb, Andrew J Andrews, Alexander Gansen, Andrea Rocker, Katalin Tóth, Karolin Luger, Jörg Langowski. Nucleic Acids Res 2011
131
33

Molecular Mechanism of Spontaneous Nucleosome Unraveling.
David Winogradoff, Aleksei Aksimentiev. J Mol Biol 2019
26
33

DNA basepair step deformability inferred from molecular dynamics simulations.
Filip Lankas, Jirí Sponer, Jörg Langowski, Thomas E Cheatham. Biophys J 2003
186
33


Tension-dependent structural deformation alters single-molecule transition kinetics.
B Sudhanshu, S Mihardja, E F Koslover, S Mehraeen, C Bustamante, A J Spakowitz. Proc Natl Acad Sci U S A 2011
29
33

Dynamics of nucleosome invasion by DNA binding proteins.
Hannah S Tims, Kaushik Gurunathan, Marcia Levitus, Jonathan Widom. J Mol Biol 2011
84
33

Telling Left from Right in Breathing Nucleosomes.
Helmut Schiessel. Biophys J 2018
2
50


High precision FRET studies reveal reversible transitions in nucleosomes between microseconds and minutes.
Alexander Gansen, Suren Felekyan, Ralf Kühnemuth, Kathrin Lehmann, Katalin Tóth, Claus A M Seidel, Jörg Langowski. Nat Commun 2018
25
33

Chromatin dynamics: nucleosomes go mobile through twist defects.
I M Kulić, H Schiessel. Phys Rev Lett 2003
56
33

Rigid-body molecular dynamics of DNA inside a nucleosome.
Arman Fathizadeh, Azim Berdy Besya, Mohammad Reza Ejtehadi, Helmut Schiessel. Eur Phys J E Soft Matter 2013
23
33


Electrostatic mechanism of nucleosomal array folding revealed by computer simulation.
Jian Sun, Qing Zhang, Tamar Schlick. Proc Natl Acad Sci U S A 2005
79
33

Free energy profiles for unwrapping the outer superhelical turn of nucleosomal DNA.
Hidetoshi Kono, Shun Sakuraba, Hisashi Ishida. PLoS Comput Biol 2018
13
33

The conformational state of the nucleosome entry-exit site modulates TATA box-specific TBP binding.
Aaron R Hieb, Alexander Gansen, Vera Böhm, Jörg Langowski. Nucleic Acids Res 2014
17
33


Using DNA mechanics to predict in vitro nucleosome positions and formation energies.
Alexandre V Morozov, Karissa Fortney, Daria A Gaykalova, Vasily M Studitsky, Jonathan Widom, Eric D Siggia. Nucleic Acids Res 2009
132
33

Solvent mediated interactions in the structure of the nucleosome core particle at 1.9 a resolution.
Curt A Davey, David F Sargent, Karolin Luger, Armin W Maeder, Timothy J Richmond. J Mol Biol 2002
948
33

Probing Nucleosome Stability with a DNA Origami Nanocaliper.
Jenny V Le, Yi Luo, Michael A Darcy, Christopher R Lucas, Michelle F Goodwin, Michael G Poirier, Carlos E Castro. ACS Nano 2016
39
33

Sequence-dependent nucleosome sliding in rotation-coupled and uncoupled modes revealed by molecular simulations.
Toru Niina, Giovanni B Brandani, Cheng Tan, Shoji Takada. PLoS Comput Biol 2017
23
33

Unwinding and rewinding the nucleosome inner turn: force dependence of the kinetic rate constants.
S G J Mochrie, A H Mack, D J Schlingman, R Collins, M Kamenetska, L Regan. Phys Rev E Stat Nonlin Soft Matter Phys 2013
9
33

Sequence-dependent nucleosome structure and stability variations detected by Förster resonance energy transfer.
L Kelbauskas, N Chan, R Bash, J Yodh, N Woodbury, D Lohr. Biochemistry 2007
34
33

Genomes of Multicellular Organisms Have Evolved to Attract Nucleosomes to Promoter Regions.
Marco Tompitak, Cédric Vaillant, Helmut Schiessel. Biophys J 2017
22
33


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.