A citation-based method for searching scientific literature

Margaret R Woodhouse, Ethalinda K Cannon, John L Portwood, Lisa C Harper, Jack M Gardiner, Mary L Schaeffer, Carson M Andorf. BMC Plant Biol 2021
Times Cited: 29







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



Times Cited
  Times     Co-cited
Similarity


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
27

Improved maize reference genome with single-molecule technologies.
Yinping Jiao, Paul Peluso, Jinghua Shi, Tiffany Liang, Michelle C Stitzer, Bo Wang, Michael S Campbell, Joshua C Stein, Xuehong Wei, Chen-Shan Chin,[...]. Nature 2017
559
24

The Arabidopsis information resource: Making and mining the "gold standard" annotated reference plant genome.
Tanya Z Berardini, Leonore Reiser, Donghui Li, Yarik Mezheritsky, Robert Muller, Emily Strait, Eva Huala. Genesis 2015
462
17

SoyBase, the USDA-ARS soybean genetics and genomics database.
David Grant, Rex T Nelson, Steven B Cannon, Randy C Shoemaker. Nucleic Acids Res 2010
282
17

STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
17

Trimmomatic: a flexible trimmer for Illumina sequence data.
Anthony M Bolger, Marc Lohse, Bjoern Usadel. Bioinformatics 2014
17

The Sol Genomics Network (SGN)--from genotype to phenotype to breeding.
Noe Fernandez-Pozo, Naama Menda, Jeremy D Edwards, Surya Saha, Isaak Y Tecle, Susan R Strickler, Aureliano Bombarely, Thomas Fisher-York, Anuradha Pujar, Hartmut Foerster,[...]. Nucleic Acids Res 2015
285
13

Phytozome: a comparative platform for green plant genomics.
David M Goodstein, Shengqiang Shu, Russell Howson, Rochak Neupane, Richard D Hayes, Joni Fazo, Therese Mitros, William Dirks, Uffe Hellsten, Nicholas Putnam,[...]. Nucleic Acids Res 2012
13

De novo assembly, annotation, and comparative analysis of 26 diverse maize genomes.
Matthew B Hufford, Arun S Seetharam, Margaret R Woodhouse, Kapeel M Chougule, Shujun Ou, Jianing Liu, William A Ricci, Tingting Guo, Andrew Olson, Yinjie Qiu,[...]. Science 2021
84
13

Genetic properties of the maize nested association mapping population.
Michael D McMullen, Stephen Kresovich, Hector Sanchez Villeda, Peter Bradbury, Huihui Li, Qi Sun, Sherry Flint-Garcia, Jeffry Thornsberry, Charlotte Acharya, Christopher Bottoms,[...]. Science 2009
546
13

Insights into the maize pan-genome and pan-transcriptome.
Candice N Hirsch, Jillian M Foerster, James M Johnson, Rajandeep S Sekhon, German Muttoni, Brieanne Vaillancourt, Francisco Peñagaricano, Erika Lindquist, Mary Ann Pedraza, Kerrie Barry,[...]. Plant Cell 2014
280
13

MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity.
Yupeng Wang, Haibao Tang, Jeremy D Debarry, Xu Tan, Jingping Li, Xiyin Wang, Tae-ho Lee, Huizhe Jin, Barry Marler, Hui Guo,[...]. Nucleic Acids Res 2012
13

PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences.
Magali Lescot, Patrice Déhais, Gert Thijs, Kathleen Marchal, Yves Moreau, Yves Van de Peer, Pierre Rouzé, Stephane Rombauts. Nucleic Acids Res 2002
13

TBtools: An Integrative Toolkit Developed for Interactive Analyses of Big Biological Data.
Chengjie Chen, Hao Chen, Yi Zhang, Hannah R Thomas, Margaret H Frank, Yehua He, Rui Xia. Mol Plant 2020
13

Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data.
Yoshihiro Kawahara, Melissa de la Bastide, John P Hamilton, Hiroyuki Kanamori, W Richard McCombie, Shu Ouyang, David C Schwartz, Tsuyoshi Tanaka, Jianzhong Wu, Shiguo Zhou,[...]. Rice (N Y) 2013
10

Ensembl Genomes 2020-enabling non-vertebrate genomic research.
Kevin L Howe, Bruno Contreras-Moreira, Nishadi De Silva, Gareth Maslen, Wasiu Akanni, James Allen, Jorge Alvarez-Jarreta, Matthieu Barba, Dan M Bolser, Lahcen Cambell,[...]. Nucleic Acids Res 2020
229
10

The Sorghum bicolor genome and the diversification of grasses.
Andrew H Paterson, John E Bowers, Rémy Bruggmann, Inna Dubchak, Jane Grimwood, Heidrun Gundlach, Georg Haberer, Uffe Hellsten, Therese Mitros, Alexander Poliakov,[...]. Nature 2009
10

Gramene 2021: harnessing the power of comparative genomics and pathways for plant research.
Marcela K Tello-Ruiz, Sushma Naithani, Parul Gupta, Andrew Olson, Sharon Wei, Justin Preece, Yinping Jiao, Bo Wang, Kapeel Chougule, Priyanka Garg,[...]. Nucleic Acids Res 2021
33
10

Rice Annotation Project Database (RAP-DB): an integrative and interactive database for rice genomics.
Hiroaki Sakai, Sung Shin Lee, Tsuyoshi Tanaka, Hisataka Numa, Jungsok Kim, Yoshihiro Kawahara, Hironobu Wakimoto, Ching-chia Yang, Masao Iwamoto, Takashi Abe,[...]. Plant Cell Physiol 2013
382
10

A study of allelic diversity underlying flowering-time adaptation in maize landraces.
J Alberto Romero Navarro, Martha Willcox, Juan Burgueño, Cinta Romay, Kelly Swarts, Samuel Trachsel, Ernesto Preciado, Arturo Terron, Humberto Vallejo Delgado, Victor Vidal,[...]. Nat Genet 2017
144
10

Basic local alignment search tool.
S F Altschul, W Gish, W Miller, E W Myers, D J Lipman. J Mol Biol 1990
10

Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes.
Silong Sun, Yingsi Zhou, Jian Chen, Junpeng Shi, Haiming Zhao, Hainan Zhao, Weibin Song, Mei Zhang, Yang Cui, Xiaomei Dong,[...]. Nat Genet 2018
180
10


Association mapping across numerous traits reveals patterns of functional variation in maize.
Jason G Wallace, Peter J Bradbury, Nengyi Zhang, Yves Gibon, Mark Stitt, Edward S Buckler. PLoS Genet 2014
112
10

Construction of the third-generation Zea mays haplotype map.
Robert Bukowski, Xiaosen Guo, Yanli Lu, Cheng Zou, Bing He, Zhengqin Rong, Bo Wang, Dawen Xu, Bicheng Yang, Chuanxiao Xie,[...]. Gigascience 2018
137
10

Maize association population: a high-resolution platform for quantitative trait locus dissection.
Sherry A Flint-Garcia, Anne-Céline Thuillet, Jianming Yu, Gael Pressoir, Susan M Romero, Sharon E Mitchell, John Doebley, Stephen Kresovich, Major M Goodman, Edward S Buckler. Plant J 2005
418
10

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
10

Cytoscape: a software environment for integrated models of biomolecular interaction networks.
Paul Shannon, Andrew Markiel, Owen Ozier, Nitin S Baliga, Jonathan T Wang, Daniel Ramage, Nada Amin, Benno Schwikowski, Trey Ideker. Genome Res 2003
10

The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets.
Damian Szklarczyk, Annika L Gable, Katerina C Nastou, David Lyon, Rebecca Kirsch, Sampo Pyysalo, Nadezhda T Doncheva, Marc Legeay, Tao Fang, Peer Bork,[...]. Nucleic Acids Res 2021
10


PlantscRNAdb: A database for plant single-cell RNA analysis.
Hongyu Chen, Xinxin Yin, Longbiao Guo, Jie Yao, Yiwen Ding, Xiaoxu Xu, Lu Liu, Qian-Hao Zhu, Qinjie Chu, Longjiang Fan. Mol Plant 2021
11
18

The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
Olivier Jaillon, Jean-Marc Aury, Benjamin Noel, Alberto Policriti, Christian Clepet, Alberto Casagrande, Nathalie Choisne, Sébastien Aubourg, Nicola Vitulo, Claire Jubin,[...]. Nature 2007
6

The Sorghum QTL Atlas: a powerful tool for trait dissection, comparative genomics and crop improvement.
Emma Mace, David Innes, Colleen Hunt, Xuemin Wang, Yongfu Tao, Jared Baxter, Michael Hassall, Adrian Hathorn, David Jordan. Theor Appl Genet 2019
48
6

Population genomic and genome-wide association studies of agroclimatic traits in sorghum.
Geoffrey P Morris, Punna Ramu, Santosh P Deshpande, C Thomas Hash, Trushar Shah, Hari D Upadhyaya, Oscar Riera-Lizarazu, Patrick J Brown, Charlotte B Acharya, Sharon E Mitchell,[...]. Proc Natl Acad Sci U S A 2013
402
6

GrainGenes: centralized small grain resources and digital platform for geneticists and breeders.
Victoria C Blake, Margaret R Woodhouse, Gerard R Lazo, Sarah G Odell, Charlene P Wight, Nicholas A Tinker, Yi Wang, Yong Q Gu, Clay L Birkett, Jean-Luc Jannink,[...]. Database (Oxford) 2019
39
6

The molecular biology of meiosis in plants.
Raphaël Mercier, Christine Mézard, Eric Jenczewski, Nicolas Macaisne, Mathilde Grelon. Annu Rev Plant Biol 2015
277
6

Recombination patterns in maize reveal limits to crossover homeostasis.
Gaganpreet K Sidhu, Celestia Fang, Mischa A Olson, Matthieu Falque, Olivier C Martin, Wojciech P Pawlowski. Proc Natl Acad Sci U S A 2015
33
6

Genome editing in maize directed by CRISPR-Cas9 ribonucleoprotein complexes.
Sergei Svitashev, Christine Schwartz, Brian Lenderts, Joshua K Young, A Mark Cigan. Nat Commun 2016
327
6

High-Throughput CRISPR/Cas9 Mutagenesis Streamlines Trait Gene Identification in Maize.
Hai-Jun Liu, Liumei Jian, Jieting Xu, Qinghua Zhang, Maolin Zhang, Minliang Jin, Yong Peng, Jiali Yan, Baozhu Han, Jie Liu,[...]. Plant Cell 2020
76
6

CRISPR-Cas9-mediated 75.5-Mb inversion in maize.
Chris Schwartz, Brian Lenderts, Lanie Feigenbutz, Pierluigi Barone, Victor Llaca, Kevin Fengler, Sergei Svitashev. Nat Plants 2020
36
6

Foliar herbivory triggers local and long distance defense responses in maize.
Arunkanth Ankala, Rowena Y Kelley, Dennis E Rowe, William P Williams, Dawn S Luthe. Plant Sci 2013
23
8

Genome-wide Association Studies in Maize: Praise and Stargaze.
Yingjie Xiao, Haijun Liu, Liuji Wu, Marilyn Warburton, Jianbing Yan. Mol Plant 2017
155
6

MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations.
E S Lander, P Green, J Abrahamson, A Barlow, M J Daly, S E Lincoln, L A Newberg. Genomics 1987
6

Genome-Wide Association Study for Maize Leaf Cuticular Conductance Identifies Candidate Genes Involved in the Regulation of Cuticle Development.
Meng Lin, Susanne Matschi, Miguel Vasquez, James Chamness, Nicholas Kaczmar, Matheus Baseggio, Michael Miller, Ethan L Stewart, Pengfei Qiao, Michael J Scanlon,[...]. G3 (Bethesda) 2020
9
22

Widespread long-range cis-regulatory elements in the maize genome.
William A Ricci, Zefu Lu, Lexiang Ji, Alexandre P Marand, Christina L Ethridge, Nathalie G Murphy, Jaclyn M Noshay, Mary Galli, María Katherine Mejía-Guerra, Maria Colomé-Tatché,[...]. Nat Plants 2019
128
6

Genetic structure and diversity among maize inbred lines as inferred from DNA microsatellites.
Kejun Liu, Major Goodman, Spencer Muse, J Stephen Smith, Ed Buckler, John Doebley. Genetics 2003
217
6

A single domestication for maize shown by multilocus microsatellite genotyping.
Yoshihiro Matsuoka, Yves Vigouroux, Major M Goodman, Jesus Sanchez G, Edward Buckler, John Doebley. Proc Natl Acad Sci U S A 2002
496
6

HTSeq--a Python framework to work with high-throughput sequencing data.
Simon Anders, Paul Theodor Pyl, Wolfgang Huber. Bioinformatics 2015
6


Genetic design and statistical power of nested association mapping in maize.
Jianming Yu, James B Holland, Michael D McMullen, Edward S Buckler. Genetics 2008
514
6


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.