A citation-based method for searching scientific literature

Helen M Rowe, Johan Jakobsson, Daniel Mesnard, Jacques Rougemont, Séverine Reynard, Tugce Aktas, Pierre V Maillard, Hillary Layard-Liesching, Sonia Verp, Julien Marquis, François Spitz, Daniel B Constam, Didier Trono. Nature 2010
Times Cited: 445







List of co-cited articles
1330 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Proviral silencing in embryonic stem cells requires the histone methyltransferase ESET.
Toshiyuki Matsui, Danny Leung, Hiroki Miyashita, Irina A Maksakova, Hitoshi Miyachi, Hiroshi Kimura, Makoto Tachibana, Matthew C Lorincz, Yoichi Shinkai. Nature 2010
446
45

KRAB zinc-finger proteins contribute to the evolution of gene regulatory networks.
Michaël Imbeault, Pierre-Yves Helleboid, Didier Trono. Nature 2017
185
33

Embryonic stem cell potency fluctuates with endogenous retrovirus activity.
Todd S Macfarlan, Wesley D Gifford, Shawn Driscoll, Karen Lettieri, Helen M Rowe, Dario Bonanomi, Amy Firth, Oded Singer, Didier Trono, Samuel L Pfaff. Nature 2012
535
29

Initial sequencing and analysis of the human genome.
E S Lander, L M Linton, B Birren, C Nusbaum, M C Zody, J Baldwin, K Devon, K Dewar, M Doyle, W FitzHugh,[...]. Nature 2001
25

An evolutionary arms race between KRAB zinc-finger genes ZNF91/93 and SVA/L1 retrotransposons.
Frank M J Jacobs, David Greenberg, Ngan Nguyen, Maximilian Haeussler, Adam D Ewing, Sol Katzman, Benedict Paten, Sofie R Salama, David Haussler. Nature 2014
229
23

DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs.
Mohammad M Karimi, Preeti Goyal, Irina A Maksakova, Misha Bilenky, Danny Leung, Jie Xin Tang, Yoichi Shinkai, Dixie L Mager, Steven Jones, Martin Hirst,[...]. Cell Stem Cell 2011
273
23

Regulatory activities of transposable elements: from conflicts to benefits.
Edward B Chuong, Nels C Elde, Cédric Feschotte. Nat Rev Genet 2017
463
22

Regulatory evolution of innate immunity through co-option of endogenous retroviruses.
Edward B Chuong, Nels C Elde, Cédric Feschotte. Science 2016
355
22




Evolutionally dynamic L1 regulation in embryonic stem cells.
Nathaly Castro-Diaz, Gabriela Ecco, Andrea Coluccio, Adamandia Kapopoulou, Benyamin Yazdanpanah, Marc Friedli, Julien Duc, Suk Min Jang, Priscilla Turelli, Didier Trono. Genes Dev 2014
121
20

Histone H3.3 is required for endogenous retroviral element silencing in embryonic stem cells.
Simon J Elsässer, Kyung-Min Noh, Nichole Diaz, C David Allis, Laura A Banaszynski. Nature 2015
184
18

Transposable Elements and Their KRAB-ZFP Controllers Regulate Gene Expression in Adult Tissues.
Gabriela Ecco, Marco Cassano, Annamaria Kauzlaric, Julien Duc, Andrea Coluccio, Sandra Offner, Michaël Imbeault, Helen M Rowe, Priscilla Turelli, Didier Trono. Dev Cell 2016
98
18

The KRAB zinc finger protein ZFP809 is required to initiate epigenetic silencing of endogenous retroviruses.
Gernot Wolf, Peng Yang, Annette C Füchtbauer, Ernst-Martin Füchtbauer, Andreia M Silva, Chungoo Park, Warren Wu, Anders L Nielsen, Finn S Pedersen, Todd S Macfarlan. Genes Dev 2015
90
20

An epigenetic switch ensures transposon repression upon dynamic loss of DNA methylation in embryonic stem cells.
Marius Walter, Aurélie Teissandier, Raquel Pérez-Palacios, Déborah Bourc'his. Elife 2016
119
18

A LINE1-Nucleolin Partnership Regulates Early Development and ESC Identity.
Michelle Percharde, Chih-Jen Lin, Yafei Yin, Juan Guan, Gabriel A Peixoto, Aydan Bulut-Karslioglu, Steffen Biechele, Bo Huang, Xiaohua Shen, Miguel Ramalho-Santos. Cell 2018
151
18

KRAB zinc finger proteins.
Gabriela Ecco, Michael Imbeault, Didier Trono. Development 2017
105
18


Interplay of TRIM28 and DNA methylation in controlling human endogenous retroelements.
Priscilla Turelli, Nathaly Castro-Diaz, Flavia Marzetta, Adamandia Kapopoulou, Charlène Raclot, Julien Duc, Vannary Tieng, Simon Quenneville, Didier Trono. Genome Res 2014
101
17

Intrinsic retroviral reactivation in human preimplantation embryos and pluripotent cells.
Edward J Grow, Ryan A Flynn, Shawn L Chavez, Nicholas L Bayless, Mark Wossidlo, Daniel J Wesche, Lance Martin, Carol B Ware, Catherine A Blish, Howard Y Chang,[...]. Nature 2015
274
17

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
17

TRIM28 repression of retrotransposon-based enhancers is necessary to preserve transcriptional dynamics in embryonic stem cells.
Helen M Rowe, Adamandia Kapopoulou, Andrea Corsinotti, Liana Fasching, Todd S Macfarlan, Yara Tarabay, Stéphane Viville, Johan Jakobsson, Samuel L Pfaff, Didier Trono. Genome Res 2013
91
17

Initial sequencing and comparative analysis of the mouse genome.
Robert H Waterston, Kerstin Lindblad-Toh, Ewan Birney, Jane Rogers, Josep F Abril, Pankaj Agarwal, Richa Agarwala, Rachel Ainscough, Marina Alexandersson, Peter An,[...]. Nature 2002
16

The HUSH complex cooperates with TRIM28 to repress young retrotransposons and new genes.
Luisa Robbez-Masson, Christopher H C Tie, Lucia Conde, Hale Tunbak, Connor Husovsky, Iva A Tchasovnikarova, Richard T Timms, Javier Herrero, Paul J Lehner, Helen M Rowe. Genome Res 2018
51
31

Distinct roles of KAP1, HP1 and G9a/GLP in silencing of the two-cell-specific retrotransposon MERVL in mouse ES cells.
Irina A Maksakova, Peter J Thompson, Preeti Goyal, Steven Jm Jones, Prim B Singh, Mohammad M Karimi, Matthew C Lorincz. Epigenetics Chromatin 2013
91
17

Endogenous retroviruses and neighboring genes are coordinately repressed by LSD1/KDM1A.
Todd S Macfarlan, Wesley D Gifford, Saurabh Agarwal, Shawn Driscoll, Karen Lettieri, Jianxun Wang, Shane E Andrews, Laura Franco, Michael G Rosenfeld, Bing Ren,[...]. Genes Dev 2011
150
16

Roles for retrotransposon insertions in human disease.
Dustin C Hancks, Haig H Kazazian. Mob DNA 2016
263
16

Conserved roles of mouse DUX and human DUX4 in activating cleavage-stage genes and MERVL/HERVL retrotransposons.
Peter G Hendrickson, Jessie A Doráis, Edward J Grow, Jennifer L Whiddon, Jong-Won Lim, Candice L Wike, Bradley D Weaver, Christian Pflueger, Benjamin R Emery, Aaron L Wilcox,[...]. Nat Genet 2017
231
15

DUX-family transcription factors regulate zygotic genome activation in placental mammals.
Alberto De Iaco, Evarist Planet, Andrea Coluccio, Sonia Verp, Julien Duc, Didier Trono. Nat Genet 2017
197
15

Coevolution of retroelements and tandem zinc finger genes.
James H Thomas, Sean Schneider. Genome Res 2011
112
15


De novo DNA methylation of endogenous retroviruses is shaped by KRAB-ZFPs/KAP1 and ESET.
Helen M Rowe, Marc Friedli, Sandra Offner, Sonia Verp, Daniel Mesnard, Julien Marquis, Tugce Aktas, Didier Trono. Development 2013
98
14

Retrotransposons regulate host genes in mouse oocytes and preimplantation embryos.
Anne E Peaston, Alexei V Evsikov, Joel H Graber, Wilhelmine N de Vries, Andrea E Holbrook, Davor Solter, Barbara B Knowles. Dev Cell 2004
408
14

DNA-Demethylating Agents Target Colorectal Cancer Cells by Inducing Viral Mimicry by Endogenous Transcripts.
David Roulois, Helen Loo Yau, Rajat Singhania, Yadong Wang, Arnavaz Danesh, Shu Yi Shen, Han Han, Gangning Liang, Peter A Jones, Trevor J Pugh,[...]. Cell 2015
577
14

The retrovirus HERVH is a long noncoding RNA required for human embryonic stem cell identity.
Xinyi Lu, Friedrich Sachs, LeeAnn Ramsay, Pierre-Étienne Jacques, Jonathan Göke, Guillaume Bourque, Huck-Hui Ng. Nat Struct Mol Biol 2014
194
13

Transposable elements have rewired the core regulatory network of human embryonic stem cells.
Galih Kunarso, Na-Yu Chia, Justin Jeyakani, Catalina Hwang, Xinyi Lu, Yun-Shen Chan, Huck-Hui Ng, Guillaume Bourque. Nat Genet 2010
464
13

Suv39h-dependent H3K9me3 marks intact retrotransposons and silences LINE elements in mouse embryonic stem cells.
Aydan Bulut-Karslioglu, Inti A De La Rosa-Velázquez, Fidel Ramirez, Maxim Barenboim, Megumi Onishi-Seebacher, Julia Arand, Carmen Galán, Georg E Winter, Bettina Engist, Borbala Gerle,[...]. Mol Cell 2014
166
13

LINE-1 activation after fertilization regulates global chromatin accessibility in the early mouse embryo.
Joanna W Jachowicz, Xinyang Bing, Julien Pontabry, Ana Bošković, Oliver J Rando, Maria-Elena Torres-Padilla. Nat Genet 2017
108
13

Selective silencing of euchromatic L1s revealed by genome-wide screens for L1 regulators.
Nian Liu, Cameron H Lee, Tomek Swigut, Edward Grow, Bo Gu, Michael C Bassik, Joanna Wysocka. Nature 2018
105
13

Model-based analysis of ChIP-Seq (MACS).
Yong Zhang, Tao Liu, Clifford A Meyer, Jérôme Eeckhoute, David S Johnson, Bradley E Bernstein, Chad Nusbaum, Richard M Myers, Myles Brown, Wei Li,[...]. Genome Biol 2008
13

Widespread contribution of transposable elements to the innovation of gene regulatory networks.
Vasavi Sundaram, Yong Cheng, Zhihai Ma, Daofeng Li, Xiaoyun Xing, Peter Edge, Michael P Snyder, Ting Wang. Genome Res 2014
194
13

KAP1 regulates endogenous retroviruses in adult human cells and contributes to innate immune control.
Christopher Hc Tie, Liane Fernandes, Lucia Conde, Luisa Robbez-Masson, Rebecca P Sumner, Tom Peacock, Maria Teresa Rodriguez-Plata, Greta Mickute, Robert Gifford, Greg J Towers,[...]. EMBO Rep 2018
35
37

Dynamic transcription of distinct classes of endogenous retroviral elements marks specific populations of early human embryonic cells.
Jonathan Göke, Xinyi Lu, Yun-Shen Chan, Huck-Hui Ng, Lam-Ha Ly, Friedrich Sachs, Iwona Szczerbinska. Cell Stem Cell 2015
145
12


Hot L1s account for the bulk of retrotransposition in the human population.
Brook Brouha, Joshua Schustak, Richard M Badge, Sheila Lutz-Prigge, Alexander H Farley, John V Moran, Haig H Kazazian. Proc Natl Acad Sci U S A 2003
649
12

Inhibiting DNA Methylation Causes an Interferon Response in Cancer via dsRNA Including Endogenous Retroviruses.
Katherine B Chiappinelli, Pamela L Strissel, Alexis Desrichard, Huili Li, Christine Henke, Benjamin Akman, Alexander Hein, Neal S Rote, Leslie M Cope, Alexandra Snyder,[...]. Cell 2015
708
12

In embryonic stem cells, ZFP57/KAP1 recognize a methylated hexanucleotide to affect chromatin and DNA methylation of imprinting control regions.
Simon Quenneville, Gaetano Verde, Andrea Corsinotti, Adamandia Kapopoulou, Johan Jakobsson, Sandra Offner, Ilaria Baglivo, Paolo V Pedone, Giovanna Grimaldi, Andrea Riccio,[...]. Mol Cell 2011
351
11

C2H2 zinc finger proteins greatly expand the human regulatory lexicon.
Hamed S Najafabadi, Sanie Mnaimneh, Frank W Schmitges, Michael Garton, Kathy N Lam, Ally Yang, Mihai Albu, Matthew T Weirauch, Ernest Radovani, Philip M Kim,[...]. Nat Biotechnol 2015
166
11

Systematic identification of factors for provirus silencing in embryonic stem cells.
Bin Xia Yang, Chadi A El Farran, Hong Chao Guo, Tao Yu, Hai Tong Fang, Hao Fei Wang, Sharon Schlesinger, Yu Fen Samantha Seah, Germaine Yen Lin Goh, Suat Peng Neo,[...]. Cell 2015
95
11


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.