A citation-based method for searching scientific literature

Curt A Davey, David F Sargent, Karolin Luger, Armin W Maeder, Timothy J Richmond. J Mol Biol 2002
Times Cited: 966







List of co-cited articles
1197 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Crystal structure of the nucleosome core particle at 2.8 A resolution.
K Luger, A W Mäder, R K Richmond, D F Sargent, T J Richmond. Nature 1997
61


Coupling between Histone Conformations and DNA Geometry in Nucleosomes on a Microsecond Timescale: Atomistic Insights into Nucleosome Functions.
Alexey K Shaytan, Grigoriy A Armeev, Alexander Goncearenco, Victor B Zhurkin, David Landsman, Anna R Panchenko. J Mol Biol 2016
81
25

ChromEMT: Visualizing 3D chromatin structure and compaction in interphase and mitotic cells.
Horng D Ou, Sébastien Phan, Thomas J Deerinck, Andrea Thor, Mark H Ellisman, Clodagh C O'Shea. Science 2017
361
19

Nucleosome structure and dynamics are coming of age.
Keda Zhou, Guillaume Gaullier, Karolin Luger. Nat Struct Mol Biol 2019
93
19

Cryo-EM study of the chromatin fiber reveals a double helix twisted by tetranucleosomal units.
Feng Song, Ping Chen, Dapeng Sun, Mingzhu Wang, Liping Dong, Dan Liang, Rui-Ming Xu, Ping Zhu, Guohong Li. Science 2014
338
16

Nucleosome structure and function.
Robert K McGinty, Song Tan. Chem Rev 2015
209
16

ff14SB: Improving the Accuracy of Protein Side Chain and Backbone Parameters from ff99SB.
James A Maier, Carmenza Martinez, Koushik Kasavajhala, Lauren Wickstrom, Kevin E Hauser, Carlos Simmerling. J Chem Theory Comput 2015
15

Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1.
Jan Bednar, Isabel Garcia-Saez, Ramachandran Boopathi, Amber R Cutter, Gabor Papai, Anna Reymer, Sajad H Syed, Imtiaz Nisar Lone, Ognyan Tonchev, Corinne Crucifix,[...]. Mol Cell 2017
119
15


Rapid spontaneous accessibility of nucleosomal DNA.
Gu Li, Marcia Levitus, Carlos Bustamante, Jonathan Widom. Nat Struct Mol Biol 2005
444
14

VMD: visual molecular dynamics.
W Humphrey, A Dalke, K Schulten. J Mol Graph 1996
14


Chromatin Unfolding by Epigenetic Modifications Explained by Dramatic Impairment of Internucleosome Interactions: A Multiscale Computational Study.
Rosana Collepardo-Guevara, Guillem Portella, Michele Vendruscolo, Daan Frenkel, Tamar Schlick, Modesto Orozco. J Am Chem Soc 2015
78
16

Pioneer transcription factors target partial DNA motifs on nucleosomes to initiate reprogramming.
Abdenour Soufi, Meilin Fernandez Garcia, Artur Jaroszewicz, Nebiyu Osman, Matteo Pellegrini, Kenneth S Zaret. Cell 2015
356
12

Histone H4-K16 acetylation controls chromatin structure and protein interactions.
Michael Shogren-Knaak, Haruhiko Ishii, Jian-Min Sun, Michael J Pazin, James R Davie, Craig L Peterson. Science 2006
12

X-ray structure of a tetranucleosome and its implications for the chromatin fibre.
Thomas Schalch, Sylwia Duda, David F Sargent, Timothy J Richmond. Nature 2005
506
12

UCSF Chimera--a visualization system for exploratory research and analysis.
Eric F Pettersen, Thomas D Goddard, Conrad C Huang, Gregory S Couch, Daniel M Greenblatt, Elaine C Meng, Thomas E Ferrin. J Comput Chem 2004
12


Chromatin fibers are formed by heterogeneous groups of nucleosomes in vivo.
Maria Aurelia Ricci, Carlo Manzo, María Filomena García-Parajo, Melike Lakadamyali, Maria Pia Cosma. Cell 2015
308
12

DNA sliding in nucleosomes via twist defect propagation revealed by molecular simulations.
Giovanni B Brandani, Toru Niina, Cheng Tan, Shoji Takada. Nucleic Acids Res 2018
36
30

Histone octamer rearranges to adapt to DNA unwrapping.
Silvija Bilokapic, Mike Strauss, Mario Halic. Nat Struct Mol Biol 2018
79
13


Spheroid chromatin units (v bodies).
A L Olins, D E Olins. Science 1974
11



Parmbsc1: a refined force field for DNA simulations.
Ivan Ivani, Pablo D Dans, Agnes Noy, Alberto Pérez, Ignacio Faustino, Adam Hospital, Jürgen Walther, Pau Andrio, Ramon Goñi, Alexandra Balaceanu,[...]. Nat Methods 2016
365
11

Molecular Mechanism of Spontaneous Nucleosome Unraveling.
David Winogradoff, Aleksei Aksimentiev. J Mol Biol 2019
29
34

Chromatin fiber polymorphism triggered by variations of DNA linker lengths.
Rosana Collepardo-Guevara, Tamar Schlick. Proc Natl Acad Sci U S A 2014
83
12

The structure of DNA in the nucleosome core.
Timothy J Richmond, Curt A Davey. Nature 2003
775
10

The conformation of the histone H3 tail inhibits association of the BPTF PHD finger with the nucleosome.
Emma A Morrison, Samuel Bowerman, Kelli L Sylvers, Jeff Wereszczynski, Catherine A Musselman. Elife 2018
40
25

Asymmetric unwrapping of nucleosomes under tension directed by DNA local flexibility.
Thuy T M Ngo, Qiucen Zhang, Ruobo Zhou, Jaya G Yodh, Taekjip Ha. Cell 2015
154
10

Exploring the Free Energy Landscape of Nucleosomes.
Bin Zhang, Weihua Zheng, Garegin A Papoian, Peter G Wolynes. J Am Chem Soc 2016
64
15

Regulation of chromatin by histone modifications.
Andrew J Bannister, Tony Kouzarides. Cell Res 2011
10


Modulations of DNA Contacts by Linker Histones and Post-translational Modifications Determine the Mobility and Modifiability of Nucleosomal H3 Tails.
Alexandra Stützer, Stamatios Liokatis, Anja Kiesel, Dirk Schwarzer, Remco Sprangers, Johannes Söding, Philipp Selenko, Wolfgang Fischle. Mol Cell 2016
66
15

A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.
Suhas S P Rao, Miriam H Huntley, Neva C Durand, Elena K Stamenova, Ivan D Bochkov, James T Robinson, Adrian L Sanborn, Ido Machol, Arina D Omer, Eric S Lander,[...]. Cell 2014
10

Comprehensive mapping of long-range interactions reveals folding principles of the human genome.
Erez Lieberman-Aiden, Nynke L van Berkum, Louise Williams, Maxim Imakaev, Tobias Ragoczy, Agnes Telling, Ido Amit, Bryan R Lajoie, Peter J Sabo, Michael O Dorschner,[...]. Science 2009
10

EM measurements define the dimensions of the "30-nm" chromatin fiber: evidence for a compact, interdigitated structure.
Philip J J Robinson, Louise Fairall, Van A T Huynh, Daniela Rhodes. Proc Natl Acad Sci U S A 2006
307
10

Structure of RCC1 chromatin factor bound to the nucleosome core particle.
Ravindra D Makde, Joseph R England, Hemant P Yennawar, Song Tan. Nature 2010
266
10

Dynamic Organization of Chromatin Domains Revealed by Super-Resolution Live-Cell Imaging.
Tadasu Nozaki, Ryosuke Imai, Mai Tanbo, Ryosuke Nagashima, Sachiko Tamura, Tomomi Tani, Yasumasa Joti, Masaru Tomita, Kayo Hibino, Masato T Kanemaki,[...]. Mol Cell 2017
176
10



Emerging roles of linker histones in regulating chromatin structure and function.
Dmitry V Fyodorov, Bing-Rui Zhou, Arthur I Skoultchi, Yawen Bai. Nat Rev Mol Cell Biol 2018
160
9

Chromatin fiber folding: requirement for the histone H4 N-terminal tail.
Benedetta Dorigo, Thomas Schalch, Kerstin Bystricky, Timothy J Richmond. J Mol Biol 2003
372
9

Role of histone tails in structural stability of the nucleosome.
Mithun Biswas, Karine Voltz, Jeremy C Smith, Jörg Langowski. PLoS Comput Biol 2011
71
12

The mechanics behind DNA sequence-dependent properties of the nucleosome.
Eugene Y D Chua, Dileep Vasudevan, Gabriela E Davey, Bin Wu, Curt A Davey. Nucleic Acids Res 2012
104
9

Asymmetric unwrapping of nucleosomal DNA propagates asymmetric opening and dissociation of the histone core.
Yujie Chen, Joshua M Tokuda, Traci Topping, Steve P Meisburger, Suzette A Pabit, Lisa M Gloss, Lois Pollack. Proc Natl Acad Sci U S A 2017
54
16

Mapping Nucleosome Resolution Chromosome Folding in Yeast by Micro-C.
Tsung-Han S Hsieh, Assaf Weiner, Bryan Lajoie, Job Dekker, Nir Friedman, Oliver J Rando. Cell 2015
280
9

Subnucleosomal structures and nucleosome asymmetry across a genome.
Ho Sung Rhee, Alain R Bataille, Liye Zhang, B Franklin Pugh. Cell 2014
125
8


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.