A citation-based method for searching scientific literature

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, David A Nix, C Matthew Peterson, Stephen J Tapscott, Douglas T Carrell, Bradley R Cairns. Nat Genet 2017
Times Cited: 231







List of co-cited articles
1112 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


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
72

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
47

Conservation and innovation in the DUX4-family gene network.
Jennifer L Whiddon, Ashlee T Langford, Chao-Jen Wong, Jun Wen Zhong, Stephen J Tapscott. Nat Genet 2017
120
40


Early embryonic-like cells are induced by downregulating replication-dependent chromatin assembly.
Takashi Ishiuchi, Rocio Enriquez-Gasca, Eiji Mizutani, Ana Bošković, Celine Ziegler-Birling, Diego Rodriguez-Terrones, Teruhiko Wakayama, Juan M Vaquerizas, Maria-Elena Torres-Padilla. Nat Struct Mol Biol 2015
153
29

Dppa2 and Dppa4 directly regulate the Dux-driven zygotic transcriptional program.
Mélanie Eckersley-Maslin, Celia Alda-Catalinas, Marloes Blotenburg, Elisa Kreibich, Christel Krueger, Wolf Reik. Genes Dev 2019
59
45

A molecular roadmap for the emergence of early-embryonic-like cells in culture.
Diego Rodriguez-Terrones, Xavier Gaume, Takashi Ishiuchi, Amélie Weiss, Arnaud Kopp, Kai Kruse, Audrey Penning, Juan M Vaquerizas, Laurent Brino, Maria-Elena Torres-Padilla. Nat Genet 2018
54
48

DUX4 activates germline genes, retroelements, and immune mediators: implications for facioscapulohumeral dystrophy.
Linda N Geng, Zizhen Yao, Lauren Snider, Abraham P Fong, Jennifer N Cech, Janet M Young, Silvere M van der Maarel, Walter L Ruzzo, Robert C Gentleman, Rabi Tawil,[...]. Dev Cell 2012
251
25

MERVL/Zscan4 Network Activation Results in Transient Genome-wide DNA Demethylation of mESCs.
Mélanie A Eckersley-Maslin, Valentine Svensson, Christel Krueger, Thomas M Stubbs, Pascal Giehr, Felix Krueger, Ricardo J Miragaia, Charalampos Kyriakopoulos, Rebecca V Berrens, Inês Milagre,[...]. Cell Rep 2016
87
27

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
23

Facioscapulohumeral dystrophy: incomplete suppression of a retrotransposed gene.
Lauren Snider, Linda N Geng, Richard J L F Lemmers, Michael Kyba, Carol B Ware, Angelique M Nelson, Rabi Tawil, Galina N Filippova, Silvère M van der Maarel, Stephen J Tapscott,[...]. PLoS Genet 2010
269
22

DPPA2 and DPPA4 are necessary to establish a 2C-like state in mouse embryonic stem cells.
Alberto De Iaco, Alexandre Coudray, Julien Duc, Didier Trono. EMBO Rep 2019
45
46

Zscan4 regulates telomere elongation and genomic stability in ES cells.
Michal Zalzman, Geppino Falco, Lioudmila V Sharova, Akira Nishiyama, Marshall Thomas, Sung-Lim Lee, Carole A Stagg, Hien G Hoang, Hsih-Te Yang, Fred E Indig,[...]. Nature 2010
243
21

A unifying genetic model for facioscapulohumeral muscular dystrophy.
Richard J L F Lemmers, Patrick J van der Vliet, Rinse Klooster, Sabrina Sacconi, Pilar Camaño, Johannes G Dauwerse, Lauren Snider, Kirsten R Straasheijm, Gert Jan van Ommen, George W Padberg,[...]. Science 2010
436
20

Digenic inheritance of an SMCHD1 mutation and an FSHD-permissive D4Z4 allele causes facioscapulohumeral muscular dystrophy type 2.
Richard J L F Lemmers, Rabi Tawil, Lisa M Petek, Judit Balog, Gregory J Block, Gijs W E Santen, Amanda M Amell, Patrick J van der Vliet, Rowida Almomani, Kirsten R Straasheijm,[...]. Nat Genet 2012
340
20

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
18

DUX4 recruits p300/CBP through its C-terminus and induces global H3K27 acetylation changes.
Si Ho Choi, Micah D Gearhart, Ziyou Cui, Darko Bosnakovski, Minjee Kim, Natalie Schennum, Michael Kyba. Nucleic Acids Res 2016
71
23

Zscan4: a novel gene expressed exclusively in late 2-cell embryos and embryonic stem cells.
Geppino Falco, Sung-Lim Lee, Ilaria Stanghellini, Uwem C Bassey, Toshio Hamatani, Minoru S H Ko. Dev Biol 2007
153
16

Precise temporal regulation of Dux is important for embryo development.
Mingyue Guo, Yanping Zhang, Jianfeng Zhou, Yan Bi, Junqin Xu, Ce Xu, Xiaochen Kou, Yanhong Zhao, Yanhe Li, Zhifen Tu,[...]. Cell Res 2019
23
69

Deficiency of microRNA miR-34a expands cell fate potential in pluripotent stem cells.
Yong Jin Choi, Chao-Po Lin, Davide Risso, Sean Chen, Thomas Aquinas Kim, Meng How Tan, Jin Billy Li, Yalei Wu, Caifu Chen, Zhenyu Xuan,[...]. Science 2017
84
19

Mutations in DNMT3B Modify Epigenetic Repression of the D4Z4 Repeat and the Penetrance of Facioscapulohumeral Dystrophy.
Marlinde L van den Boogaard, Richard J L F Lemmers, Judit Balog, Mariëlle Wohlgemuth, Mari Auranen, Satomi Mitsuhashi, Patrick J van der Vliet, Kirsten R Straasheijm, Rob F P van den Akker, Marjolein Kriek,[...]. Am J Hum Genet 2016
102
16

DUX is a non-essential synchronizer of zygotic genome activation.
Alberto De Iaco, Sonia Verp, Sandra Offner, Delphine Grun, Didier Trono. Development 2020
22
72

An isogenetic myoblast expression screen identifies DUX4-mediated FSHD-associated molecular pathologies.
Darko Bosnakovski, Zhaohui Xu, Eun Ji Gang, Cristi L Galindo, Mingju Liu, Tugba Simsek, Harold R Garner, Siamak Agha-Mohammadi, Alexandra Tassin, Frédérique Coppée,[...]. EMBO J 2008
198
15

Nucleotide sequence of the partially deleted D4Z4 locus in a patient with FSHD identifies a putative gene within each 3.3 kb element.
J Gabriëls, M C Beckers, H Ding, A De Vriese, S Plaisance, S M van der Maarel, G W Padberg, R R Frants, J E Hewitt, D Collen,[...]. Gene 1999
236
15

STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
15

DPPA2/4 and SUMO E3 ligase PIAS4 opposingly regulate zygotic transcriptional program.
Yao-Long Yan, Chao Zhang, Jing Hao, Xue-Lian Wang, Jia Ming, Li Mi, Jie Na, Xinli Hu, Yangming Wang. PLoS Biol 2019
30
46

Myc and Dnmt1 impede the pluripotent to totipotent state transition in embryonic stem cells.
Xudong Fu, Xiaoji Wu, Mohamed Nadhir Djekidel, Yi Zhang. Nat Cell Biol 2019
27
51

Higher chromatin mobility supports totipotency and precedes pluripotency in vivo.
Ana Bošković, André Eid, Julien Pontabry, Takashi Ishiuchi, Coralie Spiegelhalter, Edupuganti V S Raghu Ram, Eran Meshorer, Maria-Elena Torres-Padilla. Genes Dev 2014
95
14

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
14

Reprogramming of H3K9me3-dependent heterochromatin during mammalian embryo development.
Chenfei Wang, Xiaoyu Liu, Yawei Gao, Lei Yang, Chong Li, Wenqiang Liu, Chuan Chen, Xiaochen Kou, Yanhong Zhao, Jiayu Chen,[...]. Nat Cell Biol 2018
115
14

Hypomethylation of D4Z4 in 4q-linked and non-4q-linked facioscapulohumeral muscular dystrophy.
Petra G M van Overveld, Richard J F L Lemmers, Lodewijk A Sandkuijl, Leo Enthoven, Sara T Winokur, Floor Bakels, George W Padberg, Gert-Jan B van Ommen, Rune R Frants, Silvère M van der Maarel. Nat Genet 2003
264
14


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
14

Establishing Chromatin Regulatory Landscape during Mouse Preimplantation Development.
Falong Lu, Yuting Liu, Azusa Inoue, Tsukasa Suzuki, Keji Zhao, Yi Zhang. Cell 2016
136
13

Fast gapped-read alignment with Bowtie 2.
Ben Langmead, Steven L Salzberg. Nat Methods 2012
13

DUX4, a candidate gene of facioscapulohumeral muscular dystrophy, encodes a transcriptional activator of PITX1.
Manjusha Dixit, Eugénie Ansseau, Alexandra Tassin, Sara Winokur, Rongye Shi, Hong Qian, Sébastien Sauvage, Christel Mattéotti, Anne M van Acker, Oberdan Leo,[...]. Proc Natl Acad Sci U S A 2007
234
13

DUX4 binding to retroelements creates promoters that are active in FSHD muscle and testis.
Janet M Young, Jennifer L Whiddon, Zizhen Yao, Bhavatharini Kasinathan, Lauren Snider, Linda N Geng, Judit Balog, Rabi Tawil, Silvère M van der Maarel, Stephen J Tapscott. PLoS Genet 2013
86
15

Transient bursts of Zscan4 expression are accompanied by the rapid derepression of heterochromatin in mouse embryonic stem cells.
Tomohiko Akiyama, Li Xin, Mayumi Oda, Alexei A Sharov, Misa Amano, Yulan Piao, J Scotty Cadet, Dawood B Dudekula, Yong Qian, Weidong Wang,[...]. DNA Res 2015
45
26

Zscan4c activates endogenous retrovirus MERVL and cleavage embryo genes.
Weiyu Zhang, Fuquan Chen, Ruiqing Chen, Dan Xie, Jiao Yang, Xin Zhao, Renpeng Guo, Yongwang Zhang, Yang Shen, Jonathan Göke,[...]. Nucleic Acids Res 2019
21
57

Chromatin Accessibility Landscape in Human Early Embryos and Its Association with Evolution.
Lei Gao, Keliang Wu, Zhenbo Liu, Xuelong Yao, Shenli Yuan, Wenrong Tao, Lizhi Yi, Guanling Yu, Zhenzhen Hou, Dongdong Fan,[...]. Cell 2018
70
17

The Sequence Alignment/Map format and SAMtools.
Heng Li, Bob Handsaker, Alec Wysoker, Tim Fennell, Jue Ruan, Nils Homer, Gabor Marth, Goncalo Abecasis, Richard Durbin. Bioinformatics 2009
12

Chromosome 4q DNA rearrangements associated with facioscapulohumeral muscular dystrophy.
C Wijmenga, J E Hewitt, L A Sandkuijl, L N Clark, T J Wright, H G Dauwerse, A M Gruter, M H Hofker, P Moerer, R Williamson. Nat Genet 1992
487
12

DUX4-induced dsRNA and MYC mRNA stabilization activate apoptotic pathways in human cell models of facioscapulohumeral dystrophy.
Sean C Shadle, Jun Wen Zhong, Amy E Campbell, Melissa L Conerly, Sujatha Jagannathan, Chao-Jen Wong, Timothy D Morello, Silvère M van der Maarel, Stephen J Tapscott. PLoS Genet 2017
38
31

DUX4-induced gene expression is the major molecular signature in FSHD skeletal muscle.
Zizhen Yao, Lauren Snider, Judit Balog, Richard J L F Lemmers, Silvère M Van Der Maarel, Rabi Tawil, Stephen J Tapscott. Hum Mol Genet 2014
103
12

Allelic reprogramming of 3D chromatin architecture during early mammalian development.
Zhenhai Du, Hui Zheng, Bo Huang, Rui Ma, Jingyi Wu, Xianglin Zhang, Jing He, Yunlong Xiang, Qiujun Wang, Yuanyuan Li,[...]. Nature 2017
201
12

DUX-miR-344-ZMYM2-Mediated Activation of MERVL LTRs Induces a Totipotent 2C-like State.
Fan Yang, Xin Huang, Ruge Zang, Jiayu Chen, Miguel Fidalgo, Carlos Sanchez-Priego, Jihong Yang, Alexander Caichen, Fanglin Ma, Todd Macfarlan,[...]. Cell Stem Cell 2020
17
70

Single-cell RNA-seq reveals dynamic, random monoallelic gene expression in mammalian cells.
Qiaolin Deng, Daniel Ramsköld, Björn Reinius, Rickard Sandberg. Science 2014
591
11

The landscape of accessible chromatin in mammalian preimplantation embryos.
Jingyi Wu, Bo Huang, He Chen, Qiangzong Yin, Yang Liu, Yunlong Xiang, Bingjie Zhang, Bofeng Liu, Qiujun Wang, Weikun Xia,[...]. Nature 2016
272
11

Derivation of Pluripotent Stem Cells with In Vivo Embryonic and Extraembryonic Potency.
Yang Yang, Bei Liu, Jun Xu, Jinlin Wang, Jun Wu, Cheng Shi, Yaxing Xu, Jiebin Dong, Chengyan Wang, Weifeng Lai,[...]. Cell 2017
192
11

The DUX4 gene at the FSHD1A locus encodes a pro-apoptotic protein.
Valeria Kowaljow, Aline Marcowycz, Eugénie Ansseau, Cecilia B Conde, Sébastien Sauvage, Christel Mattéotti, Cristina Arias, E Daniel Corona, Nicolás G Nuñez, Oberdan Leo,[...]. Neuromuscul Disord 2007
208
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.