A citation-based method for searching scientific literature

Murukarthick Jayakodi, Mona Schreiber, Nils Stein, Martin Mascher. DNA Res 2021
Times Cited: 28







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



Times Cited
  Times     Co-cited
Similarity


The barley pan-genome reveals the hidden legacy of mutation breeding.
Murukarthick Jayakodi, Sudharsan Padmarasu, Georg Haberer, Venkata Suresh Bonthala, Heidrun Gundlach, Cécile Monat, Thomas Lux, Nadia Kamal, Daniel Lang, Axel Himmelbach,[...]. Nature 2020
126
46

Plant pan-genomes are the new reference.
Philipp E Bayer, Agnieszka A Golicz, Armin Scheben, Jacqueline Batley, David Edwards. Nat Plants 2020
146
42

The pangenome of an agronomically important crop plant Brassica oleracea.
Agnieszka A Golicz, Philipp E Bayer, Guy C Barker, Patrick P Edger, HyeRan Kim, Paula A Martinez, Chon Kit Kenneth Chan, Anita Severn-Ellis, W Richard McCombie, Isobel A P Parkin,[...]. Nat Commun 2016
195
39

Pan-Genome of Wild and Cultivated Soybeans.
Yucheng Liu, Huilong Du, Pengcheng Li, Yanting Shen, Hua Peng, Shulin Liu, Guo-An Zhou, Haikuan Zhang, Zhi Liu, Miao Shi,[...]. Cell 2020
226
35

Multiple wheat genomes reveal global variation in modern breeding.
Sean Walkowiak, Liangliang Gao, Cecile Monat, Georg Haberer, Mulualem T Kassa, Jemima Brinton, Ricardo H Ramirez-Gonzalez, Markus C Kolodziej, Emily Delorean, Dinushika Thambugala,[...]. Nature 2020
222
32

Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome".
Hervé Tettelin, Vega Masignani, Michael J Cieslewicz, Claudio Donati, Duccio Medini, Naomi L Ward, Samuel V Angiuoli, Jonathan Crabtree, Amanda L Jones, A Scott Durkin,[...]. Proc Natl Acad Sci U S A 2005
32

De novo assembly of soybean wild relatives for pan-genome analysis of diversity and agronomic traits.
Ying-hui Li, Guangyu Zhou, Jianxin Ma, Wenkai Jiang, Long-guo Jin, Zhouhao Zhang, Yong Guo, Jinbo Zhang, Yi Sui, Liangtao Zheng,[...]. Nat Biotechnol 2014
306
32

How the pan-genome is changing crop genomics and improvement.
Rafael Della Coletta, Yinjie Qiu, Shujun Ou, Matthew B Hufford, Candice N Hirsch. Genome Biol 2021
69
32

The tomato pan-genome uncovers new genes and a rare allele regulating fruit flavor.
Lei Gao, Itay Gonda, Honghe Sun, Qiyue Ma, Kan Bao, Denise M Tieman, Elizabeth A Burzynski-Chang, Tara L Fish, Kaitlin A Stromberg, Gavin L Sacks,[...]. Nat Genet 2019
229
28

Pan-genome analysis highlights the extent of genomic variation in cultivated and wild rice.
Qiang Zhao, Qi Feng, Hengyun Lu, Yan Li, Ahong Wang, Qilin Tian, Qilin Zhan, Yiqi Lu, Lei Zhang, Tao Huang,[...]. Nat Genet 2018
260
28

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.
Felipe A Simão, Robert M Waterhouse, Panagiotis Ioannidis, Evgenia V Kriventseva, Evgeny M Zdobnov. Bioinformatics 2015
25

Plant pangenomics: approaches, applications and advancements.
Monica Furaste Danilevicz, Cassandria Geraldine Tay Fernandez, Jacob Ian Marsh, Philipp Emanuel Bayer, David Edwards. Curr Opin Plant Biol 2020
52
25

The pangenome of hexaploid bread wheat.
Juan D Montenegro, Agnieszka A Golicz, Philipp E Bayer, Bhavna Hurgobin, HueyTyng Lee, Chon-Kit Kenneth Chan, Paul Visendi, Kaitao Lai, Jaroslav Doležel, Jacqueline Batley,[...]. Plant J 2017
168
25

Structural variations in plant genomes.
Rachit K Saxena, David Edwards, Rajeev K Varshney. Brief Funct Genomics 2014
104
25

Exploring and Exploiting Pan-genomics for Crop Improvement.
Yongfu Tao, Xianrong Zhao, Emma Mace, Robert Henry, David Jordan. Mol Plant 2019
88
25

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
25

Eight high-quality genomes reveal pan-genome architecture and ecotype differentiation of Brassica napus.
Jia-Ming Song, Zhilin Guan, Jianlin Hu, Chaocheng Guo, Zhiquan Yang, Shuo Wang, Dongxu Liu, Bo Wang, Shaoping Lu, Run Zhou,[...]. Nat Plants 2020
223
25

TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools.
Cécile Monat, Sudharsan Padmarasu, Thomas Lux, Thomas Wicker, Heidrun Gundlach, Axel Himmelbach, Jennifer Ens, Chengdao Li, Gary J Muehlbauer, Alan H Schulman,[...]. Genome Biol 2019
93
21

Genomic variation in 3,010 diverse accessions of Asian cultivated rice.
Wensheng Wang, Ramil Mauleon, Zhiqiang Hu, Dmytro Chebotarov, Shuaishuai Tai, Zhichao Wu, Min Li, Tianqing Zheng, Roven Rommel Fuentes, Fan Zhang,[...]. Nature 2018
556
21

Sunflower pan-genome analysis shows that hybridization altered gene content and disease resistance.
Sariel Hübner, Natalia Bercovich, Marco Todesco, Jennifer R Mandel, Jens Odenheimer, Emanuel Ziegler, Joon S Lee, Gregory J Baute, Gregory L Owens, Christopher J Grassa,[...]. Nat Plants 2019
93
21

Towards plant pangenomics.
Agnieszka A Golicz, Jacqueline Batley, David Edwards. Plant Biotechnol J 2016
112
21

Major Impacts of Widespread Structural Variation on Gene Expression and Crop Improvement in Tomato.
Michael Alonge, Xingang Wang, Matthias Benoit, Sebastian Soyk, Lara Pereira, Lei Zhang, Hamsini Suresh, Srividya Ramakrishnan, Florian Maumus, Danielle Ciren,[...]. Cell 2020
214
21

Super-Pangenome by Integrating the Wild Side of a Species for Accelerated Crop Improvement.
Aamir W Khan, Vanika Garg, Manish Roorkiwal, Agnieszka A Golicz, David Edwards, Rajeev K Varshney. Trends Plant Sci 2020
91
21

Plant Pan-Genomics Comes of Age.
Li Lei, Eugene Goltsman, David Goodstein, Guohong Albert Wu, Daniel S Rokhsar, John P Vogel. Annu Rev Plant Biol 2021
19
31

Long-read sequence assembly: a technical evaluation in barley.
Martin Mascher, Thomas Wicker, Jerry Jenkins, Christopher Plott, Thomas Lux, Chu Shin Koh, Jennifer Ens, Heidrun Gundlach, Lori B Boston, Zuzana Tulpová,[...]. Plant Cell 2021
58
17


Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure.
Sean P Gordon, Bruno Contreras-Moreira, Daniel P Woods, David L Des Marais, Diane Burgess, Shengqiang Shu, Christoph Stritt, Anne C Roulin, Wendy Schackwitz, Ludmila Tyler,[...]. Nat Commun 2017
156
17

Whole genome de novo assemblies of three divergent strains of rice, Oryza sativa, document novel gene space of aus and indica.
Michael C Schatz, Lyza G Maron, Joshua C Stein, Alejandro Hernandez Wences, James Gurtowski, Eric Biggers, Hayan Lee, Melissa Kramer, Eric Antoniou, Elena Ghiban,[...]. Genome Biol 2014
155
17

A chromosome conformation capture ordered sequence of the barley genome.
Martin Mascher, Heidrun Gundlach, Axel Himmelbach, Sebastian Beier, Sven O Twardziok, Thomas Wicker, Volodymyr Radchuk, Christoph Dockter, Pete E Hedley, Joanne Russell,[...]. Nature 2017
700
17

A physical, genetic and functional sequence assembly of the barley genome.
Klaus F X Mayer, Robbie Waugh, John W S Brown, Alan Schulman, Peter Langridge, Matthias Platzer, Geoffrey B Fincher, Gary J Muehlbauer, Kazuhiro Sato, Timothy J Close,[...]. Nature 2012
879
17

TASSEL: software for association mapping of complex traits in diverse samples.
Peter J Bradbury, Zhiwu Zhang, Dallas E Kroon, Terry M Casstevens, Yogesh Ramdoss, Edward S Buckler. Bioinformatics 2007
17

Resistance gene cloning from a wild crop relative by sequence capture and association genetics.
Sanu Arora, Burkhard Steuernagel, Kumar Gaurav, Sutha Chandramohan, Yunming Long, Oadi Matny, Ryan Johnson, Jacob Enk, Sambasivam Periyannan, Narinder Singh,[...]. Nat Biotechnol 2019
133
17

Pangenomics Comes of Age: From Bacteria to Plant and Animal Applications.
Agnieszka A Golicz, Philipp E Bayer, Prem L Bhalla, Jacqueline Batley, David Edwards. Trends Genet 2020
66
17

Genebank genomics highlights the diversity of a global barley collection.
Sara G Milner, Matthias Jost, Shin Taketa, Elena Rey Mazón, Axel Himmelbach, Markus Oppermann, Stephan Weise, Helmut Knüpffer, Martín Basterrechea, Patrick König,[...]. Nat Genet 2019
135
17

The design and construction of reference pangenome graphs with minigraph.
Heng Li, Xiaowen Feng, Chong Chu. Genome Biol 2020
79
17

Pan-genome analysis of 33 genetically diverse rice accessions reveals hidden genomic variations.
Peng Qin, Hongwei Lu, Huilong Du, Hao Wang, Weilan Chen, Zhuo Chen, Qiang He, Shujun Ou, Hongyu Zhang, Xuanzhao Li,[...]. Cell 2021
92
17


Simultaneous gene finding in multiple genomes.
Stefanie König, Lars W Romoth, Lizzy Gerischer, Mario Stanke. Bioinformatics 2016
39
14



EUPAN enables pan-genome studies of a large number of eukaryotic genomes.
Zhiqiang Hu, Chen Sun, Kuang-Chen Lu, Xixia Chu, Yue Zhao, Jinyuan Lu, Jianxin Shi, Chaochun Wei. Bioinformatics 2017
25
16

Characterization of disease resistance genes in the Brassica napus pangenome reveals significant structural variation.
Aria Dolatabadian, Philipp E Bayer, Soodeh Tirnaz, Bhavna Hurgobin, David Edwards, Jacqueline Batley. Plant Biotechnol J 2020
46
14

Homoeologous exchange is a major cause of gene presence/absence variation in the amphidiploid Brassica napus.
Bhavna Hurgobin, Agnieszka A Golicz, Philipp E Bayer, Chon-Kit Kenneth Chan, Soodeh Tirnaz, Aria Dolatabadian, Sarah V Schiessl, Birgit Samans, Juan D Montenegro, Isobel A P Parkin,[...]. Plant Biotechnol J 2018
118
14

Trait associations in the pangenome of pigeon pea (Cajanus cajan).
Junliang Zhao, Philipp E Bayer, Pradeep Ruperao, Rachit K Saxena, Aamir W Khan, Agnieszka A Golicz, Henry T Nguyen, Jacqueline Batley, David Edwards, Rajeev K Varshney. Plant Biotechnol J 2020
34
14

Designing Future Crops: Genomics-Assisted Breeding Comes of Age.
Rajeev K Varshney, Abhishek Bohra, Jianming Yu, Andreas Graner, Qifa Zhang, Mark E Sorrells. Trends Plant Sci 2021
81
14

Pangenome Graphs.
Jordan M Eizenga, Adam M Novak, Jonas A Sibbesen, Simon Heumos, Ali Ghaffaari, Glenn Hickey, Xian Chang, Josiah D Seaman, Robin Rounthwaite, Jana Ebler,[...]. Annu Rev Genomics Hum Genet 2020
33
14

Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean.
Zhengkui Zhou, Yu Jiang, Zheng Wang, Zhiheng Gou, Jun Lyu, Weiyu Li, Yanjun Yu, Liping Shu, Yingjun Zhao, Yanming Ma,[...]. Nat Biotechnol 2015
528
14

Phased diploid genome assemblies and pan-genomes provide insights into the genetic history of apple domestication.
Xuepeng Sun, Chen Jiao, Heidi Schwaninger, C Thomas Chao, Yumin Ma, Naibin Duan, Awais Khan, Seunghyun Ban, Kenong Xu, Lailiang Cheng,[...]. Nat Genet 2020
67
14


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
14


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.