A citation-based method for searching scientific literature

Jun Katahira, Hiroki Ishikawa, Kakeru Tsujimura, Sadamu Kurono, Miki Hieda. Genes Cells 2019
Times Cited: 3







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



Times Cited
  Times     Co-cited
Similarity



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
66


Arginine methylation of the DDX5 helicase RGG/RG motif by PRMT5 regulates resolution of RNA:DNA hybrids.
Sofiane Y Mersaoui, Zhenbao Yu, Yan Coulombe, Martin Karam, Franciele F Busatto, Jean-Yves Masson, Stéphane Richard. EMBO J 2019
70
66

BoxPlotR: a web tool for generation of box plots.
Michaela Spitzer, Jan Wildenhain, Juri Rappsilber, Mike Tyers. Nat Methods 2014
397
33

RNA Processing and Genome Stability: Cause and Consequence.
Vihandha O Wickramasinghe, Ashok R Venkitaraman. Mol Cell 2016
73
33

The THO complex component Thp2 counteracts telomeric R-loops and telomere shortening.
Verena Pfeiffer, Jérôme Crittin, Larissa Grolimund, Joachim Lingner. EMBO J 2013
90
33

Human TREX component Thoc5 affects alternative polyadenylation site choice by recruiting mammalian cleavage factor I.
Jun Katahira, Daisuke Okuzaki, Hitomi Inoue, Yoshihiro Yoneda, Kazumitsu Maehara, Yasuyuki Ohkawa. Nucleic Acids Res 2013
40
33

The role of TREX in gene expression and disease.
Catherine G Heath, Nicolas Viphakone, Stuart A Wilson. Biochem J 2016
97
33

deepTools2: a next generation web server for deep-sequencing data analysis.
Fidel Ramírez, Devon P Ryan, Björn Grüning, Vivek Bhardwaj, Fabian Kilpert, Andreas S Richter, Steffen Heyne, Friederike Dündar, Thomas Manke. Nucleic Acids Res 2016
33

RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships.
Julie Nadel, Rodoniki Athanasiadou, Christophe Lemetre, N Ari Wijetunga, Pilib Ó Broin, Hanae Sato, Zhengdong Zhang, Jeffrey Jeddeloh, Cristina Montagna, Aaron Golden,[...]. Epigenetics Chromatin 2015
92
33


mRNA export and the TREX complex.
Jun Katahira. Biochim Biophys Acta 2012
89
33

SeqKit: A Cross-Platform and Ultrafast Toolkit for FASTA/Q File Manipulation.
Wei Shen, Shuai Le, Yan Li, Fuquan Hu. PLoS One 2016
535
33

The Caenorhabditis elegans THO complex is required for the mitotic cell cycle and development.
Maikel Castellano-Pozo, Tatiana García-Muse, Andrés Aguilera. PLoS One 2012
12
33

Structure and polymorphism of human telomere-associated DNA.
W R Brown, P J MacKinnon, A Villasanté, N Spurr, V J Buckle, M J Dobson. Cell 1990
310
33

A role for CTCF and cohesin in subtelomere chromatin organization, TERRA transcription, and telomere end protection.
Zhong Deng, Zhuo Wang, Nick Stong, Robert Plasschaert, Aliah Moczan, Horng-Shen Chen, Sufeng Hu, Priyankara Wikramasinghe, Ramana V Davuluri, Marisa S Bartolomei,[...]. EMBO J 2012
113
33

Processing of double-R-loops in (CAG)·(CTG) and C9orf72 (GGGGCC)·(GGCCCC) repeats causes instability.
Kaalak Reddy, Monika H M Schmidt, Jaimie M Geist, Neha P Thakkar, Gagan B Panigrahi, Yuh-Hwa Wang, Christopher E Pearson. Nucleic Acids Res 2014
65
33

R Loops and Links to Human Disease.
Patricia Richard, James L Manley. J Mol Biol 2017
95
33

R-loops cause replication impairment and genome instability during meiosis.
Maikel Castellano-Pozo, Tatiana García-Muse, Andrés Aguilera. EMBO Rep 2012
57
33

Context-specific role of SOX9 in NF-Y mediated gene regulation in colorectal cancer cells.
Zhongcheng Shi, Chi-I Chiang, Paul Labhart, Yanling Zhao, Jianhua Yang, Toni-Ann Mistretta, Susan J Henning, Sankar N Maity, Yuko Mori-Akiyama. Nucleic Acids Res 2015
44
33


Genome instability and transcription elongation impairment in human cells depleted of THO/TREX.
María S Domínguez-Sánchez, Sonia Barroso, Belén Gómez-González, Rosa Luna, Andrés Aguilera. PLoS Genet 2011
153
33

Genes with internal repeats require the THO complex for transcription.
Vladimir Voynov, Kevin J Verstrepen, An Jansen, Vanessa M Runner, Stephen Buratowski, Gerald R Fink. Proc Natl Acad Sci U S A 2006
44
33

A quantitative telomeric chromatin isolation protocol identifies different telomeric states.
Larissa Grolimund, Eric Aeby, Romain Hamelin, Florence Armand, Diego Chiappe, Marc Moniatte, Joachim Lingner. Nat Commun 2013
76
33

fastp: an ultra-fast all-in-one FASTQ preprocessor.
Shifu Chen, Yanqing Zhou, Yaru Chen, Jia Gu. Bioinformatics 2018
33

CpG-island promoters drive transcription of human telomeres.
Solomon G Nergadze, Benjamin O Farnung, Harry Wischnewski, Lela Khoriauli, Valerio Vitelli, Raghav Chawla, Elena Giulotto, Claus M Azzalin. RNA 2009
157
33

Flap Endonuclease 1 Limits Telomere Fragility on the Leading Strand.
Daniel C Teasley, Shankar Parajuli, Mai Nguyen, Hayley R Moore, Elise Alspach, Ying Jie Lock, Yuchi Honaker, Abhishek Saharia, Helen Piwnica-Worms, Sheila A Stewart. J Biol Chem 2015
19
33

SFPQ and NONO suppress RNA:DNA-hybrid-related telomere instability.
Eleonora Petti, Valentina Buemi, Antonina Zappone, Odessa Schillaci, Pamela Veneziano Broccia, Roberto Dinami, Silvia Matteoni, Roberta Benetti, Stefan Schoeftner. Nat Commun 2019
50
33

Genome-wide function of THO/TREX in active genes prevents R-loop-dependent replication obstacles.
Belén Gómez-González, María García-Rubio, Rodrigo Bermejo, Hélène Gaillard, Katsuhiko Shirahige, Antonio Marín, Marco Foiani, Andrés Aguilera. EMBO J 2011
151
33

New insights into repeat instability: role of RNA•DNA hybrids.
Elizabeth I McIvor, Urszula Polak, Marek Napierala. RNA Biol 2010
32
33

ChIPseek, a web-based analysis tool for ChIP data.
Ting-Wen Chen, Hsin-Pai Li, Chi-Ching Lee, Ruei-Chi Gan, Po-Jung Huang, Timothy H Wu, Cheng-Yang Lee, Yi-Feng Chang, Petrus Tang. BMC Genomics 2014
46
33

Identification of chromatin marks at TERRA promoter and encoding region.
Yutaka Negishi, Hideya Kawaji, Aki Minoda, Kengo Usui. Biochem Biophys Res Commun 2015
14
33

Telomeric repeat containing RNA and RNA surveillance factors at mammalian chromosome ends.
Claus M Azzalin, Patrick Reichenbach, Lela Khoriauli, Elena Giulotto, Joachim Lingner. Science 2007
869
33

Dominantly inherited, non-coding microsatellite expansion disorders.
Laura P W Ranum, John W Day. Curr Opin Genet Dev 2002
90
33

Transcription promotes contraction of CAG repeat tracts in human cells.
Yunfu Lin, Vincent Dion, John H Wilson. Nat Struct Mol Biol 2006
123
33

Adaptor Aly and co-adaptor Thoc5 function in the Tap-p15-mediated nuclear export of HSP70 mRNA.
Jun Katahira, Hitomi Inoue, Ed Hurt, Yoshihiro Yoneda. EMBO J 2009
104
33

HSV-1-induced disruption of transcription termination resembles a cellular stress response but selectively increases chromatin accessibility downstream of genes.
Thomas Hennig, Marco Michalski, Andrzej J Rutkowski, Lara Djakovic, Adam W Whisnant, Marie-Sophie Friedl, Bhaskar Anand Jha, Marisa A P Baptista, Anne L'Hernault, Florian Erhard,[...]. PLoS Pathog 2018
38
33

DHX9 helicase promotes R-loop formation in cells with impaired RNA splicing.
Prasun Chakraborty, Jeffrey T J Huang, Kevin Hiom. Nat Commun 2018
70
33

An ATR-dependent function for the Ddx19 RNA helicase in nuclear R-loop metabolism.
Dana Hodroj, Bénédicte Recolin, Kamar Serhal, Susan Martinez, Nikolay Tsanov, Raghida Abou Merhi, Domenico Maiorano. EMBO J 2017
75
33

RNA recognition by the human polyadenylation factor CstF.
Y Takagaki, J L Manley. Mol Cell Biol 1997
147
33

Widespread Inducible Transcription Downstream of Human Genes.
Anna Vilborg, Maria C Passarelli, Therese A Yario, Kazimierz T Tycowski, Joan A Steitz. Mol Cell 2015
92
33

A conserved mechanism of DEAD-box ATPase activation by nucleoporins and InsP6 in mRNA export.
Ben Montpetit, Nathan D Thomsen, Kara J Helmke, Markus A Seeliger, James M Berger, Karsten Weis. Nature 2011
178
33

Nup42 and IP6 coordinate Gle1 stimulation of Dbp5/DDX19B for mRNA export in yeast and human cells.
Rebecca L Adams, Aaron C Mason, Laura Glass, Aditi, Susan R Wente. Traffic 2017
27
33

Quantitative model of R-loop forming structures reveals a novel level of RNA-DNA interactome complexity.
Thidathip Wongsurawat, Piroon Jenjaroenpun, Chee Keong Kwoh, Vladimir Kuznetsov. Nucleic Acids Res 2012
64
33

R loops: new modulators of genome dynamics and function.
José M Santos-Pereira, Andrés Aguilera. Nat Rev Genet 2015
432
33

The Dbp5 cycle at the nuclear pore complex during mRNA export I: dbp5 mutants with defects in RNA binding and ATP hydrolysis define key steps for Nup159 and Gle1.
Christine A Hodge, Elizabeth J Tran, Kristen N Noble, Abel R Alcazar-Roman, Rakefet Ben-Yishay, John J Scarcelli, Andrew W Folkmann, Yaron Shav-Tal, Susan R Wente, Charles N Cole. Genes Dev 2011
82
33


An essential role for hGle1 nucleocytoplasmic shuttling in mRNA export.
Frederic Kendirgi, Dianne M Barry, Eric R Griffis, Maureen A Powers, Susan R Wente. J Cell Biol 2003
49
33



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.