A citation-based method for searching scientific literature

Josh T Cuperus, Noah Fahlgren, James C Carrington. Plant Cell 2011
Times Cited: 459







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



Times Cited
  Times     Co-cited
Similarity


Biogenesis, turnover, and mode of action of plant microRNAs.
Kestrel Rogers, Xuemei Chen. Plant Cell 2013
526
21



Ultrafast and memory-efficient alignment of short DNA sequences to the human genome.
Ben Langmead, Cole Trapnell, Mihai Pop, Steven L Salzberg. Genome Biol 2009
18

psRNATarget: a plant small RNA target analysis server.
Xinbin Dai, Patrick Xuechun Zhao. Nucleic Acids Res 2011
17

MicroRNAs and Their Regulatory Roles in Plant-Environment Interactions.
Xianwei Song, Yan Li, Xiaofeng Cao, Yijun Qi. Annu Rev Plant Biol 2019
250
17


miRBase: from microRNA sequences to function.
Ana Kozomara, Maria Birgaoanu, Sam Griffiths-Jones. Nucleic Acids Res 2019
16

The sequential action of miR156 and miR172 regulates developmental timing in Arabidopsis.
Gang Wu, Mee Yeon Park, Susan R Conway, Jia-Wei Wang, Detlef Weigel, R Scott Poethig. Cell 2009
920
15


CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets.
Charles Addo-Quaye, Webb Miller, Michael J Axtell. Bioinformatics 2009
387
15

miRBase: annotating high confidence microRNAs using deep sequencing data.
Ana Kozomara, Sam Griffiths-Jones. Nucleic Acids Res 2014
14

psRNATarget: a plant small RNA target analysis server (2017 release).
Xinbin Dai, Zhaohong Zhuang, Patrick Xuechun Zhao. Nucleic Acids Res 2018
442
14


MicroRNAs in plants.
Brenda J Reinhart, Earl G Weinstein, Matthew W Rhoades, Bonnie Bartel, David P Bartel. Genes Dev 2002
13

Prediction of plant microRNA targets.
Matthew W Rhoades, Brenda J Reinhart, Lee P Lim, Christopher B Burge, Bonnie Bartel, David P Bartel. Cell 2002
13

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
13


Global identification of microRNA-target RNA pairs by parallel analysis of RNA ends.
Marcelo A German, Manoj Pillay, Dong-Hoon Jeong, Amit Hetawal, Shujun Luo, Prakash Janardhanan, Vimal Kannan, Linda A Rymarquis, Kan Nobuta, Rana German,[...]. Nat Biotechnol 2008
574
12

Evolution of plant microRNAs and their targets.
Michael J Axtell, John L Bowman. Trends Plant Sci 2008
269
12

MicroRNAS and their regulatory roles in plants.
Matthew W Jones-Rhoades, David P Bartel, Bonnie Bartel. Annu Rev Plant Biol 2006
12

Evolution of microRNA genes by inverted duplication of target gene sequences in Arabidopsis thaliana.
Edwards Allen, Zhixin Xie, Adam M Gustafson, Gi-Ho Sung, Joseph W Spatafora, James C Carrington. Nat Genet 2004
408
11

Endogenous siRNA and miRNA targets identified by sequencing of the Arabidopsis degradome.
Charles Addo-Quaye, Tifani W Eshoo, David P Bartel, Michael J Axtell. Curr Biol 2008
517
11

microRNA-directed phasing during trans-acting siRNA biogenesis in plants.
Edwards Allen, Zhixin Xie, Adam M Gustafson, James C Carrington. Cell 2005
11

Criteria for annotation of plant MicroRNAs.
Blake C Meyers, Michael J Axtell, Bonnie Bartel, David P Bartel, David Baulcombe, John L Bowman, Xiaofeng Cao, James C Carrington, Xuemei Chen, Pamela J Green,[...]. Plant Cell 2008
813
11


Specific effects of microRNAs on the plant transcriptome.
Rebecca Schwab, Javier F Palatnik, Markus Riester, Carla Schommer, Markus Schmid, Detlef Weigel. Dev Cell 2005
987
11

Sample sequencing of vascular plants demonstrates widespread conservation and divergence of microRNAs.
Ricardo A Chávez Montes, Flor de Fátima Rosas-Cárdenas, Emanuele De Paoli, Monica Accerbi, Linda A Rymarquis, Gayathri Mahalingam, Nayelli Marsch-Martínez, Blake C Meyers, Pamela J Green, Stefan de Folter. Nat Commun 2014
123
11

miRBase: integrating microRNA annotation and deep-sequencing data.
Ana Kozomara, Sam Griffiths-Jones. Nucleic Acids Res 2011
11

Classification and comparison of small RNAs from plants.
Michael J Axtell. Annu Rev Plant Biol 2013
503
11

PsRobot: a web-based plant small RNA meta-analysis toolbox.
Hua-Jun Wu, Ying-Ke Ma, Tong Chen, Meng Wang, Xiu-Jie Wang. Nucleic Acids Res 2012
274
10

Origins and evolution of microRNA genes in plant species.
Masafumi Nozawa, Sayaka Miura, Masatoshi Nei. Genome Biol Evol 2012
140
10

Expression of Arabidopsis MIRNA genes.
Zhixin Xie, Edwards Allen, Noah Fahlgren, Adam Calamar, Scott A Givan, James C Carrington. Plant Physiol 2005
426
10

Target mimicry provides a new mechanism for regulation of microRNA activity.
José Manuel Franco-Zorrilla, Adrián Valli, Marco Todesco, Isabel Mateos, María Isabel Puga, Ignacio Rubio-Somoza, Antonio Leyva, Detlef Weigel, Juan Antonio García, Javier Paz-Ares. Nat Genet 2007
10

Functions of microRNAs in plant stress responses.
Ramanjulu Sunkar, Yong-Fang Li, Guru Jagadeeswaran. Trends Plant Sci 2012
489
9

Antiquity of microRNAs and their targets in land plants.
Michael J Axtell, David P Bartel. Plant Cell 2005
395
9

CARPEL FACTORY, a Dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana.
Wonkeun Park, Junjie Li, Rentao Song, Joachim Messing, Xuemei Chen. Curr Biol 2002
801
9

Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5' terminal nucleotide.
Shijun Mi, Tao Cai, Yugang Hu, Yemiao Chen, Emily Hodges, Fangrui Ni, Liang Wu, Shan Li, Huanyu Zhou, Chengzu Long,[...]. Cell 2008
879
9

A loop-to-base processing mechanism underlies the biogenesis of plant microRNAs miR319 and miR159.
Nicolás G Bologna, Julieta L Mateos, Edgardo G Bresso, Javier F Palatnik. EMBO J 2009
131
9

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades.
Marc R Friedländer, Sebastian D Mackowiak, Na Li, Wei Chen, Nikolaus Rajewsky. Nucleic Acids Res 2012
9


Small RNAs: Big Impact on Plant Development.
Marco D'Ario, Sam Griffiths-Jones, Minsung Kim. Trends Plant Sci 2017
128
9

The 'how' and 'where' of plant microRNAs.
Yu Yu, Tianran Jia, Xuemei Chen. New Phytol 2017
192
9

The expanding world of small RNAs in plants.
Filipe Borges, Robert A Martienssen. Nat Rev Mol Cell Biol 2015
477
8

Vive la différence: biogenesis and evolution of microRNAs in plants and animals.
Michael J Axtell, Jakub O Westholm, Eric C Lai. Genome Biol 2011
283
8

Conservation and divergence of plant microRNA genes.
Baohong Zhang, Xiaoping Pan, Charles H Cannon, George P Cobb, Todd A Anderson. Plant J 2006
455
8

Genetic analysis reveals functional redundancy and the major target genes of the Arabidopsis miR159 family.
Robert S Allen, Junyan Li, Melissa I Stahle, Aurélie Dubroué, Frank Gubler, Anthony A Millar. Proc Natl Acad Sci U S A 2007
203
8

High-throughput sequencing of Arabidopsis microRNAs: evidence for frequent birth and death of MIRNA genes.
Noah Fahlgren, Miya D Howell, Kristin D Kasschau, Elisabeth J Chapman, Christopher M Sullivan, Jason S Cumbie, Scott A Givan, Theresa F Law, Sarah R Grant, Jeffery L Dangl,[...]. PLoS One 2007
802
8




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.