A citation-based method for searching scientific literature

Luca Braccioli, Elzo de Wit. Essays Biochem 2019
Times Cited: 23







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



Times Cited
  Times     Co-cited
Similarity


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
39

CTCF: master weaver of the genome.
Jennifer E Phillips, Victor G Corces. Cell 2009
26

Structural Basis for the Versatile and Methylation-Dependent Binding of CTCF to DNA.
Hideharu Hashimoto, Dongxue Wang, John R Horton, Xing Zhang, Victor G Corces, Xiaodong Cheng. Mol Cell 2017
96
26

CTCF: making the right connections.
Rodolfo Ghirlando, Gary Felsenfeld. Genes Dev 2016
149
26

CTCF Binding Polarity Determines Chromatin Looping.
Elzo de Wit, Erica S M Vos, Sjoerd J B Holwerda, Christian Valdes-Quezada, Marjon J A M Verstegen, Hans Teunissen, Erik Splinter, Patrick J Wijchers, Peter H L Krijger, Wouter de Laat. Mol Cell 2015
287
21

CTCF and Cohesin in Genome Folding and Transcriptional Gene Regulation.
Matthias Merkenschlager, Elphège P Nora. Annu Rev Genomics Hum Genet 2016
226
21

CTCF: an architectural protein bridging genome topology and function.
Chin-Tong Ong, Victor G Corces. Nat Rev Genet 2014
563
21

CTCF establishes discrete functional chromatin domains at the Hox clusters during differentiation.
Varun Narendra, Pedro P Rocha, Disi An, Ramya Raviram, Jane A Skok, Esteban O Mazzoni, Danny Reinberg. Science 2015
299
21

Targeted Degradation of CTCF Decouples Local Insulation of Chromosome Domains from Genomic Compartmentalization.
Elphège P Nora, Anton Goloborodko, Anne-Laure Valton, Johan H Gibcus, Alec Uebersohn, Nezar Abdennur, Job Dekker, Leonid A Mirny, Benoit G Bruneau. Cell 2017
594
21

Formation of Chromosomal Domains by Loop Extrusion.
Geoffrey Fudenberg, Maxim Imakaev, Carolyn Lu, Anton Goloborodko, Nezar Abdennur, Leonid A Mirny. Cell Rep 2016
679
21

Widespread plasticity in CTCF occupancy linked to DNA methylation.
Hao Wang, Matthew T Maurano, Hongzhu Qu, Katherine E Varley, Jason Gertz, Florencia Pauli, Kristen Lee, Theresa Canfield, Molly Weaver, Richard Sandstrom,[...]. Genome Res 2012
332
17


CTCF and its protein partners: divide and rule?
Jordanka Zlatanova, Paola Caiafa. J Cell Sci 2009
105
17

A genome-wide map of CTCF multivalency redefines the CTCF code.
Hirotaka Nakahashi, Kyong-Rim Kieffer Kwon, Wolfgang Resch, Laura Vian, Marei Dose, Diana Stavreva, Ofir Hakim, Nathanael Pruett, Steevenson Nelson, Arito Yamane,[...]. Cell Rep 2013
169
17

Cohesin mediates transcriptional insulation by CCCTC-binding factor.
Kerstin S Wendt, Keisuke Yoshida, Takehiko Itoh, Masashige Bando, Birgit Koch, Erika Schirghuber, Shuichi Tsutsumi, Genta Nagae, Ko Ishihara, Tsuyoshi Mishiro,[...]. Nature 2008
802
17

Capturing chromosome conformation.
Job Dekker, Karsten Rippe, Martijn Dekker, Nancy Kleckner. Science 2002
17

Insulator dysfunction and oncogene activation in IDH mutant gliomas.
William A Flavahan, Yotam Drier, Brian B Liau, Shawn M Gillespie, Andrew S Venteicher, Anat O Stemmer-Rachamimov, Mario L Suvà, Bradley E Bernstein. Nature 2016
571
17

Architectural protein subclasses shape 3D organization of genomes during lineage commitment.
Jennifer E Phillips-Cremins, Michael E G Sauria, Amartya Sanyal, Tatiana I Gerasimova, Bryan R Lajoie, Joshua S K Bell, Chin-Tong Ong, Tracy A Hookway, Changying Guo, Yuhua Sun,[...]. Cell 2013
710
17

Spatial partitioning of the regulatory landscape of the X-inactivation centre.
Elphège P Nora, Bryan R Lajoie, Edda G Schulz, Luca Giorgetti, Ikuhiro Okamoto, Nicolas Servant, Tristan Piolot, Nynke L van Berkum, Johannes Meisig, John Sedat,[...]. Nature 2012
17

Principles of genome folding into topologically associating domains.
Quentin Szabo, Frédéric Bantignies, Giacomo Cavalli. Sci Adv 2019
138
17

Organizational principles of 3D genome architecture.
M Jordan Rowley, Victor G Corces. Nat Rev Genet 2018
298
17

Topological domains in mammalian genomes identified by analysis of chromatin interactions.
Jesse R Dixon, Siddarth Selvaraj, Feng Yue, Audrey Kim, Yan Li, Yin Shen, Ming Hu, Jun S Liu, Bing Ren. Nature 2012
17

The structural basis for cohesin-CTCF-anchored loops.
Yan Li, Judith H I Haarhuis, Ángela Sedeño Cacciatore, Roel Oldenkamp, Marjon S van Ruiten, Laureen Willems, Hans Teunissen, Kyle W Muir, Elzo de Wit, Benjamin D Rowland,[...]. Nature 2020
66
17

CTCF regulates the human p53 gene through direct interaction with its natural antisense transcript, Wrap53.
Ricardo Saldaña-Meyer, Edgar González-Buendía, Georgina Guerrero, Varun Narendra, Roberto Bonasio, Félix Recillas-Targa, Danny Reinberg. Genes Dev 2014
111
17

CTCF mediates chromatin looping via N-terminal domain-dependent cohesin retention.
Elena M Pugacheva, Naoki Kubo, Dmitri Loukinov, Md Tajmul, Sungyun Kang, Alexander L Kovalchuk, Alexander V Strunnikov, Gabriel E Zentner, Bing Ren, Victor V Lobanenkov. Proc Natl Acad Sci U S A 2020
41
17

Developing in 3D: the role of CTCF in cell differentiation.
Rodrigo G Arzate-Mejía, Félix Recillas-Targa, Victor G Corces. Development 2018
50
17

Genetic dissection of the α-globin super-enhancer in vivo.
Deborah Hay, Jim R Hughes, Christian Babbs, James O J Davies, Bryony J Graham, Lars Hanssen, Mira T Kassouf, A Marieke Marieke Oudelaar, Jacqueline A Sharpe, Maria C Suciu,[...]. Nat Genet 2016
160
17

An exceptionally conserved transcriptional repressor, CTCF, employs different combinations of zinc fingers to bind diverged promoter sequences of avian and mammalian c-myc oncogenes.
G N Filippova, S Fagerlie, E M Klenova, C Myers, Y Dehner, G Goodwin, P E Neiman, S J Collins, V V Lobanenkov. Mol Cell Biol 1996
401
13

Critical DNA binding interactions of the insulator protein CTCF: a small number of zinc fingers mediate strong binding, and a single finger-DNA interaction controls binding at imprinted loci.
Mario Renda, Ilaria Baglivo, Bonnie Burgess-Beusse, Sabrina Esposito, Roberto Fattorusso, Gary Felsenfeld, Paolo V Pedone. J Biol Chem 2007
106
13

A common mode of recognition for methylated CpG.
Yiwei Liu, Xing Zhang, Robert M Blumenthal, Xiaodong Cheng. Trends Biochem Sci 2013
62
13


Transcription factors: from enhancer binding to developmental control.
François Spitz, Eileen E M Furlong. Nat Rev Genet 2012
930
13

CCCTC-binding factor recruitment to the early region of the human papillomavirus 18 genome regulates viral oncogene expression.
Christian Paris, Ieisha Pentland, Ian Groves, David C Roberts, Simon J Powis, Nicholas Coleman, Sally Roberts, Joanna L Parish. J Virol 2015
31
13

Analysis of the vertebrate insulator protein CTCF-binding sites in the human genome.
Tae Hoon Kim, Ziedulla K Abdullaev, Andrew D Smith, Keith A Ching, Dmitri I Loukinov, Roland D Green, Michael Q Zhang, Victor V Lobanenkov, Bing Ren. Cell 2007
725
13

Polycomb recruitment to DNA in vivo by the YY1 REPO domain.
Frank H Wilkinson, Kyoungsook Park, Michael L Atchison. Proc Natl Acad Sci U S A 2006
124
13

Genome-wide targeting of the epigenetic regulatory protein CTCF to gene promoters by the transcription factor TFII-I.
Rodrigo Peña-Hernández, Maud Marques, Khalid Hilmi, Teijun Zhao, Amine Saad, Moulay A Alaoui-Jamali, Sonia V del Rincon, Todd Ashworth, Ananda L Roy, Beverly M Emerson,[...]. Proc Natl Acad Sci U S A 2015
45
13

CTCF interacts with and recruits the largest subunit of RNA polymerase II to CTCF target sites genome-wide.
Igor Chernukhin, Shaharum Shamsuddin, Sung Yun Kang, Rosita Bergström, Yoo-Wook Kwon, Wenqiang Yu, Joanne Whitehead, Rituparna Mukhopadhyay, France Docquier, Dawn Farrar,[...]. Mol Cell Biol 2007
116
13


Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells.
Jessica Zuin, Jesse R Dixon, Michael I J A van der Reijden, Zhen Ye, Petros Kolovos, Rutger W W Brouwer, Mariëtte P C van de Corput, Harmen J G van de Werken, Tobias A Knoch, Wilfred F J van IJcken,[...]. Proc Natl Acad Sci U S A 2014
459
13

CTCF-Mediated Enhancer-Promoter Interaction Is a Critical Regulator of Cell-to-Cell Variation of Gene Expression.
Gang Ren, Wenfei Jin, Kairong Cui, Joseph Rodrigez, Gangqing Hu, Zhiying Zhang, Daniel R Larson, Keji Zhao. Mol Cell 2017
94
13


Three-dimensional folding and functional organization principles of the Drosophila genome.
Tom Sexton, Eitan Yaffe, Ephraim Kenigsberg, Frédéric Bantignies, Benjamin Leblanc, Michael Hoichman, Hugues Parrinello, Amos Tanay, Giacomo Cavalli. Cell 2012
13


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
13

High-resolution TADs reveal DNA sequences underlying genome organization in flies.
Fidel Ramírez, Vivek Bhardwaj, Laura Arrigoni, Kin Chung Lam, Björn A Grüning, José Villaveces, Bianca Habermann, Asifa Akhtar, Thomas Manke. Nat Commun 2018
195
13

Cohesin Loss Eliminates All Loop Domains.
Suhas S P Rao, Su-Chen Huang, Brian Glenn St Hilaire, Jesse M Engreitz, Elizabeth M Perez, Kyong-Rim Kieffer-Kwon, Adrian L Sanborn, Sarah E Johnstone, Gavin D Bascom, Ivan D Bochkov,[...]. Cell 2017
633
13

Molecular mechanism of directional CTCF recognition of a diverse range of genomic sites.
Maolu Yin, Jiuyu Wang, Min Wang, Xinmei Li, Mo Zhang, Qiang Wu, Yanli Wang. Cell Res 2017
30
13

Targeting of CTCF to the nucleolus inhibits nucleolar transcription through a poly(ADP-ribosyl)ation-dependent mechanism.
Verónica Torrano, Joaquín Navascués, France Docquier, Ru Zhang, Les J Burke, Igor Chernukhin, Dawn Farrar, Javier León, María T Berciano, Rainer Renkawitz,[...]. J Cell Sci 2006
65
13

Acute depletion of CTCF directly affects MYC regulation through loss of enhancer-promoter looping.
Judith Hyle, Yang Zhang, Shaela Wright, Beisi Xu, Ying Shao, John Easton, Liqing Tian, Ruopeng Feng, Peng Xu, Chunliang Li. Nucleic Acids Res 2019
31
13

The chromatin insulator CTCF and the emergence of metazoan diversity.
Peter Heger, Birger Marin, Marek Bartkuhn, Einhard Schierenberg, Thomas Wiehe. Proc Natl Acad Sci U S A 2012
97
13


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.