A citation-based method for searching scientific literature

Arum Kim, Gang Greg Wang. Biochim Biophys Acta Gene Regul Mech 2021
Times Cited: 2







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



Times Cited
  Times     Co-cited
Similarity


DROPA: DRIP-seq optimized peak annotator.
Marco Russo, Bruno De Lucca, Tiziano Flati, Silvia Gioiosa, Giovanni Chillemi, Giovanni Capranico. BMC Bioinformatics 2019
4
50

G-quadruplexes in mRNA: A key structure for biological function.
Takuto Kamura, Yousuke Katsuda, Yusuke Kitamura, Toshihiro Ihara. Biochem Biophys Res Commun 2020
11
50


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
403
50

A guide to computational methods for G-quadruplex prediction.
Emilia Puig Lombardi, Arturo Londoño-Vallejo. Nucleic Acids Res 2020
26
50


R-Loop Identification and Profiling in Plants.
Pengyue Zhang, Yilong Feng, Hairong Wei, Wenli Zhang. Trends Plant Sci 2019
3
50

G-quadruplexes in promoters throughout the human genome.
Julian L Huppert, Shankar Balasubramanian. Nucleic Acids Res 2007
853
50


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
17
50

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
87
50

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
28
50

Timeline: Z-DNA: the long road to biological function.
Alexander Rich, Shuguang Zhang. Nat Rev Genet 2003
321
50

New insight into the biology of R-loops.
Prasun Chakraborty. Mutat Res 2020
5
50

G-quadruplex structures are stable and detectable in human genomic DNA.
Enid Yi Ni Lam, Dario Beraldi, David Tannahill, Shankar Balasubramanian. Nat Commun 2013
293
50

The dark side of RNA:DNA hybrids.
Alessandra Brambati, Luca Zardoni, Eleonora Nardini, Achille Pellicioli, Giordano Liberi. Mutat Res Rev Mutat Res 2020
19
50

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
50

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
214
50


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
41
50

R Loops and Links to Human Disease.
Patricia Richard, James L Manley. J Mol Biol 2017
87
50

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
8
50

R-loop structure: the formation and the effects on genomic stability.
Xuefeng Pan, Nan Jiang, Xifang Chen, Xiaohong Zhou, Liang Ding, Fei Duan. Yi Chuan 2014
4
50

Re-evaluation of G-quadruplex propensity with G4Hunter.
Amina Bedrat, Laurent Lacroix, Jean-Louis Mergny. Nucleic Acids Res 2016
293
50



Palindrome analyser - A new web-based server for predicting and evaluating inverted repeats in nucleotide sequences.
Václav Brázda, Jan Kolomazník, Jiří Lýsek, Lucia Hároníková, Jan Coufal, Jiří Št'astný. Biochem Biophys Res Commun 2016
39
50

Mapping R-Loops and RNA:DNA Hybrids with S9.6-Based Immunoprecipitation Methods.
Lionel A Sanz, Daisy Castillo-Guzman, Frédéric Chédin. J Vis Exp 2021
3
50

Genome-wide R-loop Landscapes during Cell Differentiation and Reprogramming.
Pengze Yan, Zunpeng Liu, Moshi Song, Zeming Wu, Wei Xu, Kuan Li, Qianzhao Ji, Si Wang, Xiaoqian Liu, Kaowen Yan,[...]. Cell Rep 2020
22
50

Cruciform structures are a common DNA feature important for regulating biological processes.
Václav Brázda, Rob C Laister, Eva B Jagelská, Cheryl Arrowsmith. BMC Mol Biol 2011
146
50


Recognition of Local DNA Structures by p53 Protein.
Václav Brázda, Jan Coufal. Int J Mol Sci 2017
26
50

G4Hunter web application: a web server for G-quadruplex prediction.
Václav Brázda, Jan Kolomazník, Jiří Lýsek, Martin Bartas, Miroslav Fojta, Jiří Šťastný, Jean-Louis Mergny. Bioinformatics 2019
63
50

A Structural Bisulfite Assay to Identify DNA Cruciforms.
Matthew Gentry, Lars Hennig. Mol Plant 2016
7
50

The Presence and Localization of G-Quadruplex Forming Sequences in the Domain of Bacteria.
Martin Bartas, Michaela Čutová, Václav Brázda, Patrik Kaura, Jiří Šťastný, Jan Kolomazník, Jan Coufal, Pratik Goswami, Jiří Červeň, Petr Pečinka. Molecules 2019
42
50

Transcription-dependent DNA double-strand breaks and human disease.
Agnese Cristini, Natalia Gromak, Olivier Sordet. Mol Cell Oncol 2020
6
50

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
15
50

Structure of Arabidopsis HYPONASTIC LEAVES1 and its molecular implications for miRNA processing.
Seong Wook Yang, Hong-Ying Chen, Jing Yang, Satoru Machida, Nam-Hai Chua, Y Adam Yuan. Structure 2010
113
50

Sliced microRNA targets and precise loop-first processing of MIR319 hairpins revealed by analysis of the Physcomitrella patens degradome.
Charles Addo-Quaye, Jo Ann Snyder, Yong Bum Park, Yong-Fang Li, Ramanjulu Sunkar, Michael J Axtell. RNA 2009
120
50

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
15
50

Characterization of functional relationships of R-loops with gene transcription and epigenetic modifications in rice.
Yuan Fang, Lifen Chen, Kande Lin, Yilong Feng, Pengyue Zhang, Xiucai Pan, Jennifer Sanders, Yufeng Wu, Xiu-E Wang, Zhen Su,[...]. Genome Res 2019
19
50

ALBA protein complex reads genic R-loops to maintain genome stability in Arabidopsis.
Wei Yuan, Jincong Zhou, Jinjin Tong, Wanqing Zhuo, Lishuan Wang, Yan Li, Qianwen Sun, Weiqiang Qian. Sci Adv 2019
21
50


Regulatory R-loops as facilitators of gene expression and genome stability.
Christof Niehrs, Brian Luke. Nat Rev Mol Cell Biol 2020
116
50

RNase H1 Cooperates with DNA Gyrases to Restrict R-Loops and Maintain Genome Integrity in Arabidopsis Chloroplasts.
Zhuo Yang, Quancan Hou, Lingling Cheng, Wei Xu, Yantao Hong, Shuai Li, Qianwen Sun. Plant Cell 2017
38
50

R-loop stabilization represses antisense transcription at the Arabidopsis FLC locus.
Qianwen Sun, Tibor Csorba, Konstantina Skourti-Stathaki, Nicholas J Proudfoot, Caroline Dean. Science 2013
224
50

Writing a wrong: Coupled RNA polymerase II transcription and RNA quality control.
Sarah A Peck, Katlyn D Hughes, Jose F Victorino, Amber L Mosley. Wiley Interdiscip Rev RNA 2019
21
50


MAKER-P: a tool kit for the rapid creation, management, and quality control of plant genome annotations.
Michael S Campbell, MeiYee Law, Carson Holt, Joshua C Stein, Gaurav D Moghe, David E Hufnagel, Jikai Lei, Rujira Achawanantakun, Dian Jiao, Carolyn J Lawrence,[...]. Plant Physiol 2014
210
50

Expression of Arabidopsis MIRNA genes.
Zhixin Xie, Edwards Allen, Noah Fahlgren, Adam Calamar, Scott A Givan, James C Carrington. Plant Physiol 2005
419
50


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.