Intelligent Design Breeding: My research focuses on the application of machine learning in genomic-to-phenotypic (G2P) prediction, which is a key component of Breeding 4.0.
Database Construction: To address the shortage of paired genomic and phenotypic datasets required for machine learning, I constructed BreedingAIDB, a comprehensive database integrating G2P data for rice, soybean, and maize.
Education
PhD (2020 - 2024) - Zhejiang University, Prof. Longjiang Fan's Team
Bachelor (2010 - 2014) - Tianjin Agricultural University
Publications
Zijie Shen, Enhui Shen, Kun Yang, Zuoqian Fan, Qian-Hao Zhu, Longjiang Fan and Chu-Yu Ye*. BreedingAIDB: a database integrating crop genome-to-phenotype pairs data with machine learning tools applicable in breeding[J]. Plant Communications. doi:10.1016/j.xplc.2024.100894 (IF new = 9.4) (最新中科院分区大类1区)
Zijie Shen#, Enhui Shen#, Qian-Hao Zhu, Longjiang Fan, Quan Zou* and Chu-Yu Ye*. GSCtool: A Novel Descriptor that Characterizes the Genome for Applying Machine Learning in Genomics[J]. Advanced Intelligent Systems, 2023, 5(12): 2300426. (IF = 6.8) (发表年中科院分区大类3区)
Zijie Shen, Quan Zou*. Basic polar and hydrophobic properties are the main characteristics that affect the binding of transcription factors to methylation sites[J]. Bioinformatics, 2020, 36(15): 4263-4268. (IF = 6.937) (20年中科院基础版升级版小类：数学与计算生物学2区)
Zijie Shen, Yuan Lin* and Quan Zou*. Transcription factors–DNA interactions in rice: identification and verification[J]. Briefings in Bioinformatics, 2020, 21(3): 946-956. (IF = 11.622) (20年中科院基础版小类:数学与计算生物学1区)
Zijie Shen, Dejia Fan, Jun He, Jie Huang, Ling Jiang, Xianian Chen, Yuqiang Liu*, Jianmin Wan. QTL mapping for resistance to white-backed planthopper in indica rice variety IR13427-45-2-1-2-2-2[J]. Journal of Nanjing Agricultural University, 2017, 40(6): 957-962.
Zheng Chen#, Zijie Shen#, Zilong Zhang, Da Zhao, Lei Xu* and Lijun Zhang*. RNA-associated co-expression network identifies novel biomarkers for digestive system cancer[J]. Frontiers in Genetics, 2021, 12: 659788.
Jun He#, Yuqiang Liu, Dingyang Yuan, Meijuan Duan, Yanling Liu, Zijie Shen, Chunyan Yang, Zeyu Qiu, Daoming Liu, Peizheng Wen, Jie Huang, Dejia Fan, Shizhuo Xiao, Yeyun Xin, Xianian Chen, Ling Jiang, Haiyang Wang, Longping Yuan* and Jianmin Wan*. An R2R3 MYB transcription factor confers brown planthopper resistance by regulating the phenylalanine ammonia-lyase pathway in rice[J]. Proceedings of the National Academy of Sciences, 2020, 117(1): 271-277.
