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2025	Navigating the Maze of Maize Genomics: The Impact of Transposable Elements and Tandem Repeats Cold Spring Harbor Protocols Pedro Heringer, Christopher W. Benson, Shujun Ou
2025	Particular sequence characteristics induce bias in the detection of polymorphic transposable element insertions Peer Community Journal Marie Verneret, Van Anthony Le, Thomas Faraut, Jocelyn Turpin, Emmanuelle Lerat
2025	Evolutionary dynamics and genetic diversity of transposable elements revealed by resequencing data in maize population The Plant Journal Jun‐Jie Zhuang, Ting Li, Wen‐Jing Li, Zhen‐Kun Yang, Zhen Liu, Jian‐Hong Xu
2025	Ultra-sensitive detection of transposon insertions across multiple families by transposable element display sequencing Genome Biology Pol Vendrell-Mir, Basile Leduque, Leandro Quadrana
2025	Jumping in the human brain: A review on somatic transposition Fundamental Research Yufei Zhang, Yanyan Guo, Hangxing Jia, Huijing Ma, Shengjun Tan, Yong E. Zhang
2023	Online data resource for exploring transposon insertion polymorphisms in public soybean germplasm accessions Plant Physiology Zhiyuan Yin, Qingjie Yang, Danyu Shen, Jinding Liu, Wen Huang, Daolong Dou
2023	Paths to adaptation under fluctuating nitrogen starvation: The spectrum of adaptive mutations in Saccharomyces cerevisiae is shaped by retrotransposons and microhomology-mediated recombination PLOS Genetics Michelle Hays, Katja Schwartz, Danica T. Schmidtke, Dimitra Aggeli, Gavin Sherlock
2023	Reproducible evaluation of transposable element detectors with McClintock 2 guides accurate inference of Ty insertion patterns in yeast Mobile DNA Jingxuan Chen, Preston J. Basting, Shunhua Han, David J. Garfinkel, Casey M. Bergman
2023	Transposon Polymorphism and Its Potential Impacts on Brown Planthopper (Nilaparvata lugens Stål) Resistance in Rice (Oryza sativa L.) Agronomy Huanhuan Wang, Zhenyang Liao, Yingying Gao, Lingge Zhang, Wenlong Lei, Hantang Huang, Siru Lei, Mengwei Jiang, Shuai Chen, Longqing Shi
2022	Exploring transposable element-based markers to identify allelic variations underlying agronomic traits in rice Plant Communications Haidong Yan, David C. Haak, Song Li, Linkai Huang, Aureliano Bombarely
2022	Transposable element insertion: a hidden major source of domesticated phenotypic variation in Brassica rapa Plant Biotechnology Journal Xu Cai, Runmao Lin, Jianli Liang, Graham J. King, Jian Wu, Xiaowu Wang
2022	A review of strategies used to identify transposition events in plant genomes Frontiers in Plant Science Marko Bajus, Alicja Macko-Podgórni, Dariusz Grzebelus, Miroslav Baránek
2022	Methods in Molecular Biology Jacques Nicolas, Sébastien Tempel, Anna-Sophie Fiston-Lavier, Emira Cherif
2022	Comprehensive survey of transposon mPing insertion sites and transcriptome analysis for identifying candidate genes controlling high protein content of rice Frontiers in Plant Science Yuki Monden, Hirona Tanaka, Ryota Funakoshi, Seiya Sunayama, Kiyotaka Yabe, Eri Kimoto, Kentaro Matsumiya, Takanori Yoshikawa
2021	InMut-finder: a software tool for insertion identification in mutagenesis using Nanopore long reads BMC Genomics Rui Song, Ziyao Wang, Hui Wang, Han Zhang, Xuemeng Wang, Hanh Nguyen, David Holding, Bin Yu, Tom Clemente, Shangang Jia, Chi Zhang
2021	A benchmark and an algorithm for detecting germline transposon insertions and measuring de novo transposon insertion frequencies Nucleic Acids Research Tianxiong Yu, Xiao Huang, Shengqian Dou, Xiaolu Tang, Shiqi Luo, William E Theurkauf, Jian Lu, Zhiping Weng
2021	Proceedings of the 12th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics Anwica Kashfeen, Leonard McMillan
2021	Asexual Experimental Evolution of Yeast Does Not Curtail Transposable Elements Molecular Biology and Evolution Piaopiao Chen, Jianzhi Zhang
2020	The impact of transposable elements on the structure, evolution and function of the rice genome New Phytologist Roland Akakpo, Marie‐Christine Carpentier, Yue Ie Hsing, Olivier Panaud
2020	Genomic diversity generated by a transposable element burst in a rice recombinant inbred population Proceedings of the National Academy of Sciences Jinfeng Chen, Lu Lu, Sofia M. C. Robb, Matthew Collin, Yutaka Okumoto, Jason E. Stajich, Susan R. Wessler
2020	TypeTE: a tool to genotype mobile element insertions from whole genome resequencing data Nucleic Acids Research Clément Goubert, Jainy Thomas, Lindsay M Payer, Jeffrey M Kidd, Julie Feusier, W Scott Watkins, Kathleen H Burns, Lynn B Jorde, Cédric Feschotte
2019	On the Population Dynamics of Junk: A Review on the Population Genomics of Transposable Elements Genes Yann Bourgeois, Stéphane Boissinot
2019	Tracking the origin of two genetic components associated with transposable element bursts in domesticated rice Nature Communications Jinfeng Chen, Lu Lu, Jazmine Benjamin, Stephanie Diaz, C. Nathan Hancock, Jason E. Stajich, Susan R. Wessler
2019	Transposable Elements Are Important Contributors to Standing Variation in Gene Expression in Capsella Grandiflora Molecular Biology and Evolution Jasmina Uzunović, Emily B Josephs, John R Stinchcombe, Stephen I Wright
2019	A benchmark of transposon insertion detection tools using real data Mobile DNA Pol Vendrell-Mir, Fabio Barteri, Miriam Merenciano, Josefa González, Josep M. Casacuberta, Raúl Castanera
2019	Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics Anwica Kashfeen, Harper B. Fauni, Timothy A. Bell, Fernando Pardo-Manuel de Villena, Leonard McMillan
2019	Prospects for the study of genetic variation among Moso bamboo wild-type and variants through genome resequencing Trees Ming-bing Zhou, Jia-jun Wu, M. Ramakrishnan, Xian-wen Meng, K. K. Vinod
2019	Exploring the use of transposon mobilization to produce a gene-tagged population for grapevine Acta Horticulturae R. Bicknell, C. Winefield, D. Lizamore, T.-H. Chan, T. Millar, S. Thomson, J. Larrouy, P. Barrell, M. Thompson
2017	Targeted identification of TE insertions in a Drosophila genome through hemi-specific PCR Mobile DNA Shuo Zhang, Erin S. Kelleher
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