A citation-based method for searching scientific literature

Arthur Bartels, Qiang Han, Pooja Nair, Liam Stacey, Hannah Gaynier, Matthew Mosley, Qi Qing Huang, Jacob K Pearson, Tzung-Fu Hsieh, Yong-Qiang Charles An, Wenyan Xiao. Int J Mol Sci 2018
Times Cited: 74







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



Times Cited
  Times     Co-cited
Similarity


Dynamics and function of DNA methylation in plants.
Huiming Zhang, Zhaobo Lang, Jian-Kang Zhu. Nat Rev Mol Cell Biol 2018
328
40


Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning.
Shawn J Cokus, Suhua Feng, Xiaoyu Zhang, Zugen Chen, Barry Merriman, Christian D Haudenschild, Sriharsa Pradhan, Stanley F Nelson, Matteo Pellegrini, Steven E Jacobsen. Nature 2008
24

Widespread natural variation of DNA methylation within angiosperms.
Chad E Niederhuth, Adam J Bewick, Lexiang Ji, Magdy S Alabady, Kyung Do Kim, Qing Li, Nicholas A Rohr, Aditi Rambani, John M Burke, Joshua A Udall,[...]. Genome Biol 2016
199
20

Widespread dynamic DNA methylation in response to biotic stress.
Robert H Dowen, Mattia Pelizzola, Robert J Schmitz, Ryan Lister, Jill M Dowen, Joseph R Nery, Jack E Dixon, Joseph R Ecker. Proc Natl Acad Sci U S A 2012
484
18

Gene body DNA methylation in plants.
Adam J Bewick, Robert J Schmitz. Curr Opin Plant Biol 2017
125
17

Dynamic Changes of Genome-Wide DNA Methylation during Soybean Seed Development.
Yong-Qiang Charles An, Wolfgang Goettel, Qiang Han, Arthur Bartels, Zongrang Liu, Wenyan Xiao. Sci Rep 2017
34
38

Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis.
Hume Stroud, Truman Do, Jiamu Du, Xuehua Zhong, Suhua Feng, Lianna Johnson, Dinshaw J Patel, Steven E Jacobsen. Nat Struct Mol Biol 2014
385
16

Critical roles of DNA demethylation in the activation of ripening-induced genes and inhibition of ripening-repressed genes in tomato fruit.
Zhaobo Lang, Yihai Wang, Kai Tang, Dengguo Tang, Tatsiana Datsenka, Jingfei Cheng, Yijing Zhang, Avtar K Handa, Jian-Kang Zhu. Proc Natl Acad Sci U S A 2017
123
16


DNA methylation dynamics during early plant life.
Daniel Bouyer, Amira Kramdi, Mohamed Kassam, Maren Heese, Arp Schnittger, François Roudier, Vincent Colot. Genome Biol 2017
77
14

Genome-wide analysis of Arabidopsis thaliana DNA methylation uncovers an interdependence between methylation and transcription.
Daniel Zilberman, Mary Gehring, Robert K Tran, Tracy Ballinger, Steven Henikoff. Nat Genet 2007
851
14

RNA-directed DNA methylation: an epigenetic pathway of increasing complexity.
Marjori A Matzke, Rebecca A Mosher. Nat Rev Genet 2014
694
14

Genome-wide high-resolution mapping and functional analysis of DNA methylation in arabidopsis.
Xiaoyu Zhang, Junshi Yazaki, Ambika Sundaresan, Shawn Cokus, Simon W-L Chan, Huaming Chen, Ian R Henderson, Paul Shinn, Matteo Pellegrini, Steve E Jacobsen,[...]. Cell 2006
14

The Arabidopsis nucleosome remodeler DDM1 allows DNA methyltransferases to access H1-containing heterochromatin.
Assaf Zemach, M Yvonne Kim, Ping-Hung Hsieh, Devin Coleman-Derr, Leor Eshed-Williams, Ka Thao, Stacey L Harmer, Daniel Zilberman. Cell 2013
527
13

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

Comprehensive analysis of silencing mutants reveals complex regulation of the Arabidopsis methylome.
Hume Stroud, Maxim V C Greenberg, Suhua Feng, Yana V Bernatavichute, Steven E Jacobsen. Cell 2013
481
13

Genome-wide evolutionary analysis of eukaryotic DNA methylation.
Assaf Zemach, Ivy E McDaniel, Pedro Silva, Daniel Zilberman. Science 2010
969
13

Dynamic DNA methylation reconfiguration during seed development and germination.
Taiji Kawakatsu, Joseph R Nery, Rosa Castanon, Joseph R Ecker. Genome Biol 2017
95
13

Highly integrated single-base resolution maps of the epigenome in Arabidopsis.
Ryan Lister, Ronan C O'Malley, Julian Tonti-Filippini, Brian D Gregory, Charles C Berry, A Harvey Millar, Joseph R Ecker. Cell 2008
13

Single-base resolution maps of cultivated and wild rice methylomes and regulatory roles of DNA methylation in plant gene expression.
Xin Li, Jingde Zhu, Fengyi Hu, Song Ge, Mingzhi Ye, Hui Xiang, Guojie Zhang, Xiaoming Zheng, Hongyu Zhang, Shilai Zhang,[...]. BMC Genomics 2012
156
12

Epigenetic regulation of stress responses in plants.
Viswanathan Chinnusamy, Jian-Kang Zhu. Curr Opin Plant Biol 2009
503
12

Similarity between soybean and Arabidopsis seed methylomes and loss of non-CG methylation does not affect seed development.
Jer-Young Lin, Brandon H Le, Min Chen, Kelli F Henry, Jungim Hur, Tzung-Fu Hsieh, Pao-Yang Chen, Julie M Pelletier, Matteo Pellegrini, Robert L Fischer,[...]. Proc Natl Acad Sci U S A 2017
51
17

Global increase in DNA methylation during orange fruit development and ripening.
Huan Huang, Ruie Liu, Qingfeng Niu, Kai Tang, Bo Zhang, Heng Zhang, Kunsong Chen, Jian-Kang Zhu, Zhaobo Lang. Proc Natl Acad Sci U S A 2019
56
16

Dual binding of chromomethylase domains to H3K9me2-containing nucleosomes directs DNA methylation in plants.
Jiamu Du, Xuehua Zhong, Yana V Bernatavichute, Hume Stroud, Suhua Feng, Elena Caro, Ajay A Vashisht, Jolyon Terragni, Hang Gyeong Chin, Andy Tu,[...]. Cell 2012
260
10

Hyperosmotic stress memory in Arabidopsis is mediated by distinct epigenetically labile sites in the genome and is restricted in the male germline by DNA glycosylase activity.
Anjar Wibowo, Claude Becker, Gianpiero Marconi, Julius Durr, Jonathan Price, Jorg Hagmann, Ranjith Papareddy, Hadi Putra, Jorge Kageyama, Jorg Becker,[...]. Elife 2016
137
10

Molecular mechanism of action of plant DRM de novo DNA methyltransferases.
Xuehua Zhong, Jiamu Du, Christopher J Hale, Javier Gallego-Bartolome, Suhua Feng, Ajay A Vashisht, Joanne Chory, James A Wohlschlegel, Dinshaw J Patel, Steven E Jacobsen. Cell 2014
146
10

Genome-wide analysis of DNA methylation in soybean.
Qing-Xin Song, Xiang Lu, Qing-Tian Li, Hui Chen, Xing-Yu Hu, Biao Ma, Wan-Ke Zhang, Shou-Yi Chen, Jin-Song Zhang. Mol Plant 2013
77
10

Plants regenerated from tissue culture contain stable epigenome changes in rice.
Hume Stroud, Bo Ding, Stacey A Simon, Suhua Feng, Maria Bellizzi, Matteo Pellegrini, Guo-Liang Wang, Blake C Meyers, Steven E Jacobsen. Elife 2013
120
10

Single-base resolution methylomes of tomato fruit development reveal epigenome modifications associated with ripening.
Silin Zhong, Zhangjun Fei, Yun-Ru Chen, Yi Zheng, Mingyun Huang, Julia Vrebalov, Ryan McQuinn, Nigel Gapper, Bao Liu, Jenny Xiang,[...]. Nat Biotechnol 2013
358
10

methylKit: a comprehensive R package for the analysis of genome-wide DNA methylation profiles.
Altuna Akalin, Matthias Kormaksson, Sheng Li, Francine E Garrett-Bakelman, Maria E Figueroa, Ari Melnick, Christopher E Mason. Genome Biol 2012
716
10

A naturally occurring epigenetic mutation in a gene encoding an SBP-box transcription factor inhibits tomato fruit ripening.
Kenneth Manning, Mahmut Tör, Mervin Poole, Yiguo Hong, Andrew J Thompson, Graham J King, James J Giovannoni, Graham B Seymour. Nat Genet 2006
619
10

Genome-wide demethylation of Arabidopsis endosperm.
Tzung-Fu Hsieh, Christian A Ibarra, Pedro Silva, Assaf Zemach, Leor Eshed-Williams, Robert L Fischer, Daniel Zilberman. Science 2009
400
10

Spontaneous epigenetic variation in the Arabidopsis thaliana methylome.
Claude Becker, Jörg Hagmann, Jonas Müller, Daniel Koenig, Oliver Stegle, Karsten Borgwardt, Detlef Weigel. Nature 2011
395
10

Epigenetic inheritance in plants.
Ian R Henderson, Steven E Jacobsen. Nature 2007
459
10

Reduced DNA methylation in Arabidopsis thaliana results in abnormal plant development.
E J Finnegan, W J Peacock, E S Dennis. Proc Natl Acad Sci U S A 1996
453
9

Genetic perturbation of the maize methylome.
Qing Li, Steven R Eichten, Peter J Hermanson, Virginia M Zaunbrecher, Jawon Song, Jennifer Wendt, Heidi Rosenbaum, Thelma F Madzima, Amy E Sloan, Ji Huang,[...]. Plant Cell 2014
97
9

Conservation and divergence of methylation patterning in plants and animals.
Suhua Feng, Shawn J Cokus, Xiaoyu Zhang, Pao-Yang Chen, Magnolia Bostick, Mary G Goll, Jonathan Hetzel, Jayati Jain, Steven H Strauss, Marnie E Halpern,[...]. Proc Natl Acad Sci U S A 2010
704
9

RNA-Directed DNA Methylation: The Evolution of a Complex Epigenetic Pathway in Flowering Plants.
Marjori A Matzke, Tatsuo Kanno, Antonius J M Matzke. Annu Rev Plant Biol 2015
207
9

Regulation and function of DNA methylation in plants and animals.
Xin-Jian He, Taiping Chen, Jian-Kang Zhu. Cell Res 2011
240
9

BSMAP: whole genome bisulfite sequence MAPping program.
Yuanxin Xi, Wei Li. BMC Bioinformatics 2009
560
9



Arabidopsis MET1 cytosine methyltransferase mutants.
Mark W Kankel, Douglas E Ramsey, Trevor L Stokes, Susan K Flowers, Jeremy R Haag, Jeffrey A Jeddeloh, Nicole C Riddle, Michelle L Verbsky, Eric J Richards. Genetics 2003
326
9

DEMETER, a DNA glycosylase domain protein, is required for endosperm gene imprinting and seed viability in arabidopsis.
Yeonhee Choi, Mary Gehring, Lianna Johnson, Mike Hannon, John J Harada, Robert B Goldberg, Steven E Jacobsen, Robert L Fischer. Cell 2002
457
9


DNA methylome of the 20-gigabase Norway spruce genome.
Israel Ausin, Suhua Feng, Chaowei Yu, Wanlu Liu, Hsuan Yu Kuo, Elise L Jacobsen, Jixian Zhai, Javier Gallego-Bartolome, Lin Wang, Ulrika Egertsdotter,[...]. Proc Natl Acad Sci U S A 2016
42
16

DNA methylation and its basic function.
Lisa D Moore, Thuc Le, Guoping Fan. Neuropsychopharmacology 2013
995
9

Assessing the impact of transgenerational epigenetic variation on complex traits.
Frank Johannes, Emmanuelle Porcher, Felipe K Teixeira, Vera Saliba-Colombani, Matthieu Simon, Nicolas Agier, Agnès Bulski, Juliette Albuisson, Fabiana Heredia, Pascal Audigier,[...]. PLoS Genet 2009
411
9

Epigenetic regulation in plants.
Craig S Pikaard, Ortrun Mittelsten Scheid. Cold Spring Harb Perspect Biol 2014
150
9


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.