A citation-based method for searching scientific literature

Agnieszka Żmieńko, Anna Samelak, Piotr Kozłowski, Marek Figlerowicz. Theor Appl Genet 2014
Times Cited: 99







List of co-cited articles
770 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
23


Copy number variation of multiple genes at Rhg1 mediates nematode resistance in soybean.
David E Cook, Tong Geon Lee, Xiaoli Guo, Sara Melito, Kai Wang, Adam M Bayless, Jianping Wang, Teresa J Hughes, David K Willis, Thomas E Clemente,[...]. Science 2012
296
22

Pervasive gene content variation and copy number variation in maize and its undomesticated progenitor.
Ruth A Swanson-Wagner, Steven R Eichten, Sunita Kumari, Peter Tiffin, Joshua C Stein, Doreen Ware, Nathan M Springer. Genome Res 2010
188
19

Genome structural variation discovery and genotyping.
Can Alkan, Bradley P Coe, Evan E Eichler. Nat Rev Genet 2011
782
19

Aluminum tolerance in maize is associated with higher MATE1 gene copy number.
Lyza G Maron, Claudia T Guimarães, Matias Kirst, Patrice S Albert, James A Birchler, Peter J Bradbury, Edward S Buckler, Alison E Coluccio, Tatiana V Danilova, David Kudrna,[...]. Proc Natl Acad Sci U S A 2013
151
19

Structural variants in the soybean genome localize to clusters of biotic stress-response genes.
Leah K McHale, William J Haun, Wayne W Xu, Pudota B Bhaskar, Justin E Anderson, David L Hyten, Daniel J Gerhardt, Jeffrey A Jeddeloh, Robert M Stupar. Plant Physiol 2012
114
19

Boron-toxicity tolerance in barley arising from efflux transporter amplification.
Tim Sutton, Ute Baumann, Julie Hayes, Nicholas C Collins, Bu-Jun Shi, Thorsten Schnurbusch, Alison Hay, Gwenda Mayo, Margaret Pallotta, Mark Tester,[...]. Science 2007
199
18

Maize inbreds exhibit high levels of copy number variation (CNV) and presence/absence variation (PAV) in genome content.
Nathan M Springer, Kai Ying, Yan Fu, Tieming Ji, Cheng-Ting Yeh, Yi Jia, Wei Wu, Todd Richmond, Jacob Kitzman, Heidi Rosenbaum,[...]. PLoS Genet 2009
304
16


Whole-genome sequencing of multiple Arabidopsis thaliana populations.
Jun Cao, Korbinian Schneeberger, Stephan Ossowski, Torsten Günther, Sebastian Bender, Joffrey Fitz, Daniel Koenig, Christa Lanz, Oliver Stegle, Christoph Lippert,[...]. Nat Genet 2011
613
15

Maize HapMap2 identifies extant variation from a genome in flux.
Jer-Ming Chia, Chi Song, Peter J Bradbury, Denise Costich, Natalia de Leon, John Doebley, Robert J Elshire, Brandon Gaut, Laura Geller, Jeffrey C Glaubitz,[...]. Nat Genet 2012
356
15

Distribution, functional impact, and origin mechanisms of copy number variation in the barley genome.
María Muñoz-Amatriaín, Steven R Eichten, Thomas Wicker, Todd A Richmond, Martin Mascher, Burkhard Steuernagel, Uwe Scholz, Ruvini Ariyadasa, Manuel Spannagl, Thomas Nussbaumer,[...]. Genome Biol 2013
66
22

Gene amplification confers glyphosate resistance in Amaranthus palmeri.
Todd A Gaines, Wenli Zhang, Dafu Wang, Bekir Bukun, Stephen T Chisholm, Dale L Shaner, Scott J Nissen, William L Patzoldt, Patrick J Tranel, A Stanley Culpepper,[...]. Proc Natl Acad Sci U S A 2010
263
14

Multiply to conquer: Copy number variations at Ppd-B1 and Vrn-A1 facilitate global adaptation in wheat.
Tobias Würschum, Philipp H G Boeven, Simon M Langer, C Friedrich H Longin, Willmar L Leiser. BMC Genet 2015
55
25

The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data.
Aaron McKenna, Matthew Hanna, Eric Banks, Andrey Sivachenko, Kristian Cibulskis, Andrew Kernytsky, Kiran Garimella, David Altshuler, Stacey Gabriel, Mark Daly,[...]. Genome Res 2010
13


Structural variations in plant genomes.
Rachit K Saxena, David Edwards, Rajeev K Varshney. Brief Funct Genomics 2014
92
14

Mechanisms of change in gene copy number.
P J Hastings, James R Lupski, Susan M Rosenberg, Grzegorz Ira. Nat Rev Genet 2009
745
12


Circos: an information aesthetic for comparative genomics.
Martin Krzywinski, Jacqueline Schein, Inanç Birol, Joseph Connors, Randy Gascoyne, Doug Horsman, Steven J Jones, Marco A Marra. Genome Res 2009
12

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes.
Xun Xu, Xin Liu, Song Ge, Jeffrey D Jensen, Fengyi Hu, Xin Li, Yang Dong, Ryan N Gutenkunst, Lin Fang, Lei Huang,[...]. Nat Biotechnol 2011
484
11

Global variation in copy number in the human genome.
Richard Redon, Shumpei Ishikawa, Karen R Fitch, Lars Feuk, George H Perry, T Daniel Andrews, Heike Fiegler, Michael H Shapero, Andrew R Carson, Wenwei Chen,[...]. Nature 2006
11

Genome-Wide Mapping of Structural Variations Reveals a Copy Number Variant That Determines Reproductive Morphology in Cucumber.
Zhonghua Zhang, Linyong Mao, Huiming Chen, Fengjiao Bu, Guangcun Li, Jinjing Sun, Shuai Li, Honghe Sun, Chen Jiao, Rachel Blakely,[...]. Plant Cell 2015
69
15

Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor).
Lei-Ying Zheng, Xiao-Sen Guo, Bing He, Lian-Jun Sun, Yao Peng, Shan-Shan Dong, Teng-Fei Liu, Shuye Jiang, Srinivasan Ramachandran, Chun-Ming Liu,[...]. Genome Biol 2011
140
10

Large-scale copy number polymorphism in the human genome.
Jonathan Sebat, B Lakshmi, Jennifer Troge, Joan Alexander, Janet Young, Pär Lundin, Susanne Månér, Hillary Massa, Megan Walker, Maoyen Chi,[...]. Science 2004
10



CBF gene copy number variation at Frost Resistance-2 is associated with levels of freezing tolerance in temperate-climate cereals.
Andrea K Knox, Taniya Dhillon, Hongmei Cheng, Alessandro Tondelli, Nicola Pecchioni, Eric J Stockinger. Theor Appl Genet 2010
81
11


Origins and functional impact of copy number variation in the human genome.
Donald F Conrad, Dalila Pinto, Richard Redon, Lars Feuk, Omer Gokcumen, Yujun Zhang, Jan Aerts, T Daniel Andrews, Chris Barnes, Peter Campbell,[...]. Nature 2010
9

A copy number variation map of the human genome.
Mehdi Zarrei, Jeffrey R MacDonald, Daniele Merico, Stephen W Scherer. Nat Rev Genet 2015
407
9

Copy number variation at the GL7 locus contributes to grain size diversity in rice.
Yuexing Wang, Guosheng Xiong, Jiang Hu, Liang Jiang, Hong Yu, Jie Xu, Yunxia Fang, Longjun Zeng, Erbo Xu, Jing Xu,[...]. Nat Genet 2015
223
9

The impact and origin of copy number variations in the Oryza species.
Zetao Bai, Jinfeng Chen, Yi Liao, Meijiao Wang, Rong Liu, Song Ge, Rod A Wing, Mingsheng Chen. BMC Genomics 2016
22
40

Mapping copy number variation by population-scale genome sequencing.
Ryan E Mills, Klaudia Walter, Chip Stewart, Robert E Handsaker, Ken Chen, Can Alkan, Alexej Abyzov, Seungtai Chris Yoon, Kai Ye, R Keira Cheetham,[...]. Nature 2011
728
8

Genome sequence of the palaeopolyploid soybean.
Jeremy Schmutz, Steven B Cannon, Jessica Schlueter, Jianxin Ma, Therese Mitros, William Nelson, David L Hyten, Qijian Song, Jay J Thelen, Jianlin Cheng,[...]. Nature 2010
8

The composition and origins of genomic variation among individuals of the soybean reference cultivar Williams 82.
William J Haun, David L Hyten, Wayne W Xu, Daniel J Gerhardt, Thomas J Albert, Todd Richmond, Jeffrey A Jeddeloh, Gaofeng Jia, Nathan M Springer, Carroll P Vance,[...]. Plant Physiol 2011
72
11

A pseudo-response regulator is misexpressed in the photoperiod insensitive Ppd-D1a mutant of wheat (Triticum aestivum L.).
James Beales, Adrian Turner, Simon Griffiths, John W Snape, David A Laurie. Theor Appl Genet 2007
312
8

Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
Boulos Chalhoub, France Denoeud, Shengyi Liu, Isobel A P Parkin, Haibao Tang, Xiyin Wang, Julien Chiquet, Harry Belcram, Chaobo Tong, Birgit Samans,[...]. Science 2014
8

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3.
Pablo Cingolani, Adrian Platts, Le Lily Wang, Melissa Coon, Tung Nguyen, Luan Wang, Susan J Land, Xiangyi Lu, Douglas M Ruden. Fly (Austin) 2012
8

The B73 maize genome: complexity, diversity, and dynamics.
Patrick S Schnable, Doreen Ware, Robert S Fulton, Joshua C Stein, Fusheng Wei, Shiran Pasternak, Chengzhi Liang, Jianwei Zhang, Lucinda Fulton, Tina A Graves,[...]. Science 2009
8

High-resolution genetic mapping of maize pan-genome sequence anchors.
Fei Lu, Maria C Romay, Jeffrey C Glaubitz, Peter J Bradbury, Robert J Elshire, Tianyu Wang, Yu Li, Yongxiang Li, Kassa Semagn, Xuecai Zhang,[...]. Nat Commun 2015
112
8

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration.
Helga Thorvaldsdóttir, James T Robinson, Jill P Mesirov. Brief Bioinform 2013
8

DELLY: structural variant discovery by integrated paired-end and split-read analysis.
Tobias Rausch, Thomas Zichner, Andreas Schlattl, Adrian M Stütz, Vladimir Benes, Jan O Korbel. Bioinformatics 2012
916
8


Trimmomatic: a flexible trimmer for Illumina sequence data.
Anthony M Bolger, Marc Lohse, Bjoern Usadel. Bioinformatics 2014
8

LUMPY: a probabilistic framework for structural variant discovery.
Ryan M Layer, Colby Chiang, Aaron R Quinlan, Ira M Hall. Genome Biol 2014
620
8

Structural variation in the human genome.
Lars Feuk, Andrew R Carson, Stephen W Scherer. Nat Rev Genet 2006
7

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection.
Hon-Ming Lam, Xun Xu, Xin Liu, Wenbin Chen, Guohua Yang, Fuk-Ling Wong, Man-Wah Li, Weiming He, Nan Qin, Bo Wang,[...]. Nat Genet 2010
533
7

Sub1A is an ethylene-response-factor-like gene that confers submergence tolerance to rice.
Kenong Xu, Xia Xu, Takeshi Fukao, Patrick Canlas, Reycel Maghirang-Rodriguez, Sigrid Heuer, Abdelbagi M Ismail, Julia Bailey-Serres, Pamela C Ronald, David J Mackill. Nature 2006
612
7


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.