A citation-based method for searching scientific literature

Arum Kim, Gang Greg Wang. Biochim Biophys Acta Gene Regul Mech 2021
Times Cited: 5







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



Times Cited
  Times     Co-cited
Similarity


New insight into the biology of R-loops.
Prasun Chakraborty. Mutat Res 2020
6
40

R Loops and Links to Human Disease.
Patricia Richard, James L Manley. J Mol Biol 2017
95
40


Genomic profiling of native R loops with a DNA-RNA hybrid recognition sensor.
Kang Wang, Honghong Wang, Conghui Li, Zhinang Yin, Ruijing Xiao, Qiuzi Li, Ying Xiang, Wen Wang, Jian Huang, Liang Chen,[...]. Sci Adv 2021
21
40

Organismal benefits of transcription speed control at gene boundaries.
Xueyuan Leng, Maxim Ivanov, Peter Kindgren, Indranil Malik, Axel Thieffry, Peter Brodersen, Albin Sandelin, Craig D Kaplan, Sebastian Marquardt. EMBO Rep 2020
17
40


Regulatory R-loops as facilitators of gene expression and genome stability.
Christof Niehrs, Brian Luke. Nat Rev Mol Cell Biol 2020
139
40


R-loop formation is a distinctive characteristic of unmethylated human CpG island promoters.
Paul A Ginno, Paul L Lott, Holly C Christensen, Ian Korf, Frédéric Chédin. Mol Cell 2012
491
40

Primary microRNA transcripts are processed co-transcriptionally.
Mariangela Morlando, Monica Ballarino, Natalia Gromak, Francesca Pagano, Irene Bozzoni, Nick J Proudfoot. Nat Struct Mol Biol 2008
273
40

R-Loops as Cellular Regulators and Genomic Threats.
Madzia P Crossley, Michael Bocek, Karlene A Cimprich. Mol Cell 2019
287
40

Splicing and transcription touch base: co-transcriptional spliceosome assembly and function.
Lydia Herzel, Diana S M Ottoz, Tara Alpert, Karla M Neugebauer. Nat Rev Mol Cell Biol 2017
169
40

The role of Mediator in small and long noncoding RNA production in Arabidopsis thaliana.
Yun Ju Kim, Binglian Zheng, Yu Yu, So Youn Won, Beixin Mo, Xuemei Chen. EMBO J 2011
173
40

Dual roles of the nuclear cap-binding complex and SERRATE in pre-mRNA splicing and microRNA processing in Arabidopsis thaliana.
Sascha Laubinger, Timo Sachsenberg, Georg Zeller, Wolfgang Busch, Jan U Lohmann, Gunnar Rätsch, Detlef Weigel. Proc Natl Acad Sci U S A 2008
269
40

Nascent Connections: R-Loops and Chromatin Patterning.
Frédéric Chédin. Trends Genet 2016
119
40


HASTY modulates miRNA biogenesis by linking pri-miRNA transcription and processing.
Damian A Cambiagno, Axel J Giudicatti, Agustin L Arce, Delfina Gagliardi, Lei Li, Wei Yuan, Derek S Lundberg, Detlef Weigel, Pablo A Manavella. Mol Plant 2021
24
40

R loops: new modulators of genome dynamics and function.
José M Santos-Pereira, Andrés Aguilera. Nat Rev Genet 2015
432
40

The R-loop is a common chromatin feature of the Arabidopsis genome.
Wei Xu, Hui Xu, Kuan Li, Yingxu Fan, Yang Liu, Xuerui Yang, Qianwen Sun. Nat Plants 2017
96
40

The Intrinsically Disordered Protein CARP9 Bridges HYL1 to AGO1 in the Nucleus to Promote MicroRNA Activity.
Ariel H Tomassi, Delfina A Re, Facundo Romani, Damian A Cambiagno, Lucía Gonzalo, Javier E Moreno, Agustin L Arce, Pablo A Manavella. Plant Physiol 2020
13
40

NOT2 proteins promote polymerase II-dependent transcription and interact with multiple MicroRNA biogenesis factors in Arabidopsis.
Lulu Wang, Xianwei Song, Lianfeng Gu, Xin Li, Shouyun Cao, Chengcai Chu, Xia Cui, Xuemei Chen, Xiaofeng Cao. Plant Cell 2013
98
40

mRNA adenosine methylase (MTA) deposits m6A on pri-miRNAs to modulate miRNA biogenesis in Arabidopsis thaliana.
Susheel Sagar Bhat, Dawid Bielewicz, Tomasz Gulanicz, Zsuzsanna Bodi, Xiang Yu, Stephen J Anderson, Lukasz Szewc, Mateusz Bajczyk, Jakub Dolata, Natalia Grzelak,[...]. Proc Natl Acad Sci U S A 2020
36
40

Transcription-driven chromatin repression of Intragenic transcription start sites.
Mathias Nielsen, Ryan Ard, Xueyuan Leng, Maxim Ivanov, Peter Kindgren, Vicent Pelechano, Sebastian Marquardt. PLoS Genet 2019
41
40



The R-Loop Atlas of Arabidopsis Development and Responses to Environmental Stimuli.
Wei Xu, Kuan Li, Shuai Li, Quancan Hou, Yushun Zhang, Kunpeng Liu, Qianwen Sun. Plant Cell 2020
32
40

Mammalian NET-Seq Reveals Genome-wide Nascent Transcription Coupled to RNA Processing.
Takayuki Nojima, Tomás Gomes, Ana Rita Fialho Grosso, Hiroshi Kimura, Michael J Dye, Somdutta Dhir, Maria Carmo-Fonseca, Nicholas J Proudfoot. Cell 2015
316
40

R-loop resolution promotes co-transcriptional chromatin silencing.
Congyao Xu, Zhe Wu, Hong-Chao Duan, Xiaofeng Fang, Guifang Jia, Caroline Dean. Nat Commun 2021
24
40

Active 5' splice sites regulate the biogenesis efficiency of Arabidopsis microRNAs derived from intron-containing genes.
Katarzyna Knop, Agata Stepien, Maria Barciszewska-Pacak, Michal Taube, Dawid Bielewicz, Michal Michalak, Jan W Borst, Artur Jarmolowski, Zofia Szweykowska-Kulinska. Nucleic Acids Res 2017
28
40

Combined deficiency of Senataxin and DNA-PKcs causes DNA damage accumulation and neurodegeneration in spinal muscular atrophy.
Annapoorna Kannan, Kanchan Bhatia, Dana Branzei, Laxman Gangwani. Nucleic Acids Res 2018
46
40

DROPA: DRIP-seq optimized peak annotator.
Marco Russo, Bruno De Lucca, Tiziano Flati, Silvia Gioiosa, Giovanni Chillemi, Giovanni Capranico. BMC Bioinformatics 2019
4
25

G-quadruplexes in mRNA: A key structure for biological function.
Takuto Kamura, Yousuke Katsuda, Yusuke Kitamura, Toshihiro Ihara. Biochem Biophys Res Commun 2020
12
20


The UCSC Genome Browser database: 2019 update.
Maximilian Haeussler, Ann S Zweig, Cath Tyner, Matthew L Speir, Kate R Rosenbloom, Brian J Raney, Christopher M Lee, Brian T Lee, Angie S Hinrichs, Jairo Navarro Gonzalez,[...]. Nucleic Acids Res 2019
427
20

A guide to computational methods for G-quadruplex prediction.
Emilia Puig Lombardi, Arturo Londoño-Vallejo. Nucleic Acids Res 2020
27
20


R-Loop Identification and Profiling in Plants.
Pengyue Zhang, Yilong Feng, Hairong Wei, Wenli Zhang. Trends Plant Sci 2019
3
33

G-quadruplexes in promoters throughout the human genome.
Julian L Huppert, Shankar Balasubramanian. Nucleic Acids Res 2007
873
20


Searching for non-B DNA-forming motifs using nBMST (non-B DNA motif search tool).
R Z Cer, K H Bruce, D E Donohue, N A Temiz, U S Mudunuri, M Yi, N Volfovsky, A Bacolla, B T Luke, J R Collins,[...]. Curr Protoc Hum Genet 2012
18
20

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
20

QmRLFS-finder: a model, web server and stand-alone tool for prediction and analysis of R-loop forming sequences.
Piroon Jenjaroenpun, Thidathip Wongsurawat, Surya Pavan Yenamandra, Vladimir A Kuznetsov. Nucleic Acids Res 2015
30
20

Timeline: Z-DNA: the long road to biological function.
Alexander Rich, Shuguang Zhang. Nat Rev Genet 2003
329
20

G-quadruplex structures are stable and detectable in human genomic DNA.
Enid Yi Ni Lam, Dario Beraldi, David Tannahill, Shankar Balasubramanian. Nat Commun 2013
299
20

The dark side of RNA:DNA hybrids.
Alessandra Brambati, Luca Zardoni, Eleonora Nardini, Achille Pellicioli, Giordano Liberi. Mutat Res Rev Mutat Res 2020
20
20

DNA transitions induced by binding of PARP-1 to cruciform structures in supercoiled plasmids.
Sergey Chasovskikh, Alexandre Dimtchev, Mark Smulson, Anatoly Dritschilo. Cytometry A 2005
33
20

R-loops associated with triplet repeat expansions promote gene silencing in Friedreich ataxia and fragile X syndrome.
Matthias Groh, Michele M P Lufino, Richard Wade-Martins, Natalia Gromak. PLoS Genet 2014
218
20


Human genomic Z-DNA segments probed by the Z alpha domain of ADAR1.
Heng Li, Jie Xiao, Jinming Li, Le Lu, Shu Feng, Peter Dröge. Nucleic Acids Res 2009
43
20

High-resolution, genome-wide mapping of positive supercoiling in chromosomes.
Monica S Guo, Ryo Kawamura, Megan L Littlehale, John F Marko, Michael T Laub. Elife 2021
12
20


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.