A citation-based method for searching scientific literature


List of co-cited articles
1391 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity




Nucleosome-mediated cooperativity between transcription factors.
Leonid A Mirny. Proc Natl Acad Sci U S A 2010
179
32

Rapid spontaneous accessibility of nucleosomal DNA.
Gu Li, Marcia Levitus, Carlos Bustamante, Jonathan Widom. Nat Struct Mol Biol 2005
442
31

Nucleosomes facilitate their own invasion.
Gu Li, Jonathan Widom. Nat Struct Mol Biol 2004
255
29

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
28

A genomic code for nucleosome positioning.
Eran Segal, Yvonne Fondufe-Mittendorf, Lingyi Chen, AnnChristine Thåström, Yair Field, Irene K Moore, Ji-Ping Z Wang, Jonathan Widom. Nature 2006
24


The DNA-encoded nucleosome organization of a eukaryotic genome.
Noam Kaplan, Irene K Moore, Yvonne Fondufe-Mittendorf, Andrea J Gossett, Desiree Tillo, Yair Field, Emily M LeProust, Timothy R Hughes, Jason D Lieb, Jonathan Widom,[...]. Nature 2009
831
23

The structure of DNA in the nucleosome core.
Timothy J Richmond, Curt A Davey. Nature 2003
768
22

Collaborative competition mechanism for gene activation in vivo.
Joanna A Miller, Jonathan Widom. Mol Cell Biol 2003
120
22


Spontaneous access to DNA target sites in folded chromatin fibers.
Michael G Poirier, Malte Bussiek, Jörg Langowski, Jonathan Widom. J Mol Biol 2008
102
19

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
956
17

A high-resolution atlas of nucleosome occupancy in yeast.
William Lee, Desiree Tillo, Nicolas Bray, Randall H Morse, Ronald W Davis, Timothy R Hughes, Corey Nislow. Nat Genet 2007
608
16


Dynamics and function of compact nucleosome arrays.
Michael G Poirier, Eugene Oh, Hannah S Tims, Jonathan Widom. Nat Struct Mol Biol 2009
90
16

spFRET using alternating excitation and FCS reveals progressive DNA unwrapping in nucleosomes.
W J A Koopmans, R Buning, T Schmidt, J van Noort. Biophys J 2009
84
17

Genome-scale identification of nucleosome positions in S. cerevisiae.
Guo-Cheng Yuan, Yuen-Jong Liu, Michael F Dion, Michael D Slack, Lani F Wu, Steven J Altschuler, Oliver J Rando. Science 2005
838
14

Dynamic regulation of nucleosome positioning in the human genome.
Dustin E Schones, Kairong Cui, Suresh Cuddapah, Tae-Young Roh, Artem Barski, Zhibin Wang, Gang Wei, Keji Zhao. Cell 2008
908
14

Nucleosome positions predicted through comparative genomics.
Ilya P Ioshikhes, Istvan Albert, Sara J Zanton, B Franklin Pugh. Nat Genet 2006
238
13

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

Translational and rotational settings of H2A.Z nucleosomes across the Saccharomyces cerevisiae genome.
Istvan Albert, Travis N Mavrich, Lynn P Tomsho, Ji Qi, Sara J Zanton, Stephan C Schuster, B Franklin Pugh. Nature 2007
479
12

Sequence motifs and free energies of selected natural and non-natural nucleosome positioning DNA sequences.
A Thåström, P T Lowary, H R Widlund, H Cao, M Kubista, J Widom. J Mol Biol 1999
275
12

Distinct modes of regulation by chromatin encoded through nucleosome positioning signals.
Yair Field, Noam Kaplan, Yvonne Fondufe-Mittendorf, Irene K Moore, Eilon Sharon, Yaniv Lubling, Jonathan Widom, Eran Segal. PLoS Comput Biol 2008
325
12

Incorporating nucleosomes into thermodynamic models of transcription regulation.
Tali Raveh-Sadka, Michal Levo, Eran Segal. Genome Res 2009
75
16

Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities.
Sven Heinz, Christopher Benner, Nathanael Spann, Eric Bertolino, Yin C Lin, Peter Laslo, Jason X Cheng, Cornelis Murre, Harinder Singh, Christopher K Glass. Mol Cell 2010
12


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
346
12


A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome.
Travis N Mavrich, Ilya P Ioshikhes, Bryan J Venters, Cizhong Jiang, Lynn P Tomsho, Ji Qi, Stephan C Schuster, Istvan Albert, B Franklin Pugh. Genome Res 2008
480
11




An ensemble model of competitive multi-factor binding of the genome.
Todd Wasson, Alexander J Hartemink. Genome Res 2009
71
15


Dynamics of nucleosome invasion by DNA binding proteins.
Hannah S Tims, Kaushik Gurunathan, Marcia Levitus, Jonathan Widom. J Mol Biol 2011
84
13

Measurement of histone-DNA interaction free energy in nucleosomes.
A Thåström, P T Lowary, J Widom. Methods 2004
84
11


Nucleosome positioning signals in genomic DNA.
Heather E Peckham, Robert E Thurman, Yutao Fu, John A Stamatoyannopoulos, William Stafford Noble, Kevin Struhl, Zhiping Weng. Genome Res 2007
237
10


Transcriptional regulation by the numbers: models.
Lacramioara Bintu, Nicolas E Buchler, Hernan G Garcia, Ulrich Gerland, Terence Hwa, Jané Kondev, Rob Phillips. Curr Opin Genet Dev 2005
434
10

A quantitative model of transcription factor-activated gene expression.
Harold D Kim, Erin K O'Shea. Nat Struct Mol Biol 2008
102
10

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
10

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
252
10

Structural constraints in collaborative competition of transcription factors against the nucleosome.
Georgette Moyle-Heyrman, Hannah S Tims, Jonathan Widom. J Mol Biol 2011
41
24


Rapid accessibility of nucleosomal DNA in yeast on a second time scale.
Andrea Bucceri, Kristin Kapitza, Fritz Thoma. EMBO J 2006
51
17

Global nucleosome occupancy in yeast.
Bradley E Bernstein, Chih Long Liu, Emily L Humphrey, Ethan O Perlstein, Stuart L Schreiber. Genome Biol 2004
265
9

Chromatin remodelling at promoters suppresses antisense transcription.
Iestyn Whitehouse, Oliver J Rando, Jeff Delrow, Toshio Tsukiyama. Nature 2007
302
9


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.