履历
l 澳门新葡萄新京6663 副教授（2022.08 - 至今）
l 澳门新葡萄新京6663 助理教授（2019.02 – 2022.07）
l 澳门新葡萄新京6663 研究型助理教授（2016.03 - 2019.02）
l 迈阿密大学 访问学者（2013.06 - 2014.07）
l 澳门新葡萄新京6663 系统工程博士（2009.09 - 2015.06）
l Associate Professor, Xiamen University (2022.08 - Present)
l Assistant Professor, Xiamen University (2019.02 – 2022.07)
l Research Assistant Professor, Xiamen University (2016.03 - 2019.02)
l Visiting Scholar, Miami University (2013.06 - 2014.07)
l PhD, System Engineering, Xiamen University (2009.09 - 2015.06)
研究方向
l 组学大数据分析与挖掘
l 生物信息算法及工具
l Plant Molecular Ecology
l Omics Data Processing and Analysis
l Development of Bioinformatics Algorithms and Tools
代表性论文
Congting Ye*, Danhui Zhao, Wenbin Ye, Xiaohui Wu, Guoli Ji, Qingshun Q. Li, Juncheng Lin*, QuantifyPoly(A): reshaping alternative polyadenylation landscapes of eukaryotes with weighted density peak clustering, Briefings is Bioinformatics, 2021, 22(6), 1-14.
Hongmei Qiao#, Xiaoxuan Zhou#, Wenyue Su#, Xing Zhao#, Pengfei Jin, Shanshan He, Wei Hu, Meiping Fu, Dingtian Yu, Saiqi Hao, Yuan-Ye Zhang, Wenqing Wang, Congting Ye*, Qingshun Q. Li*, Yingjia Shen*, The genomic and transcriptomic foundations of viviparous seed development in mangroves, bioRxiv, 2021, doi: 10.1101/2020.10.19.346163.
Congting Ye*, Juncheng Lin, Qingshun Q. Li*, Discovery of alternative polyadenylation dynamics from single cell types, Computational and Structural Biotechnology Journal, 2020, 18, 1012-1019.
Juncheng Lin#, Fu-Yu Hung#, Congting Ye, Liwei Hong, Yuan-Hsin Shih, Keqiang Wu*, Qingshun Q. Li*, HDA6-dependent histone deacetylation regulates mRNA polyadenylation in Arabidopsis, Genome Research, 2020, 30(10), 1407-1417.
Congting Ye#*, Qian Zhou#, Xiaohui Wu, Chen Yu, Guoli Ji, Daniel R. Saban, Qingshun Q. Li, scDAPA: detection and visualization of dynamic alternative polyadenylation from single cell RNA-seq data, Bioinformatics, 2020, 36(4), 1262-1264.
Congting Ye#, Qian Zhou#, Xiaohui Wu, Guoli Ji, Qingshun Q. Li*, Genome-wide alternative polyadenylation dynamics in response to biotic and abiotic stresses in rice, Ecotoxicology and Environmental Safety, 2019, 183, 109485.
Wenyue Su, Congting Ye, Yihui Zhang, Saiqi Hao, Qingshun Q. Li*, Identification of putative key genes for coastal environments and cold adaptation in mangrove Kandelia obovata through transcriptome analysis, Science of The Total Environment, 2019, 681, 191-201.
Congting Ye#*, Qian Zhou#, Yiling Hong, Qingshun Q. Li*, Role of alternative polyadenylation dynamics in acute myeloid leukaemia at single-cell resolution, RNA Biology, 2019, 16(6), 785-797.
Jingyi Cao, Congting Ye, Guijie Hao, Carole Dabney-Smith, Arthur G Hunt, Qingshun Q. Li*, Root hair single cell type specific profiles of gene expression and alternative polyadenylation under cadmium stress, Frontiers in Plant Science, 2019, 10, 589.
Congting Ye, Yuqi Long, Guoli Ji, Qingshun Q. Li*, Xiaohui Wu*, APAtrap: identification and quantification of alternative polyadenylation sites from RNA-seq data, Bioinformatics, 2018, 34(11), 1841-1849.
Liwei Hong, Congting Ye, Juncheng Lin, Haihui Fu, Xiaohui Wu, Qingshun Q. Li*, Alternative polyadenylation is involved in auxin‐based plant growth and development, Plant Journal, 2018, 93(2), 246-258.
Congting Ye, Guoli Ji*, Chun Liang*, detectMITE: A novel approach to detect miniature inverted repeat transposable elements in genomes, Scientific Reports, 2016, 6, 19688.
Congting Ye, Guoli Ji*, Lei Li, Chun Liang*, detectIR: A novel program for detecting perfect and imperfect inverted repeats using complex numbers and vector calculation, PloS ONE, 2014, 9(11), e113349.
Hanjie Li#, Congting Ye#, Guoli Ji*, Xiaohui Wu, Zhe Xiang, Yuanyue Li, Yonghao Cao, Xiaolong Liu, Daniel C Douek, David A Price*, Jiahuai Han*, Recombinatorial biases and convergent recombination determine interindividual TCRβ sharing in murine thymocytes, Journal of Immunology, 2012, 189(5), 2404-2413.
Hanjie Li, Congting Ye, Guoli Ji, Jiahuai Han*, Determinants of public T cell responses, Cell Research, 2012, 22(1), 33-42.
开设课程
l 数理统计
l 生物信息学
l 专业外语
l 环境与生态组学
l Mathematical Statistics
l Bioinformatics
l English Seminar
l Omics for Ecology and Environmental Sciences
科研课题
l 福建省自然科学基金面上项目，2020.11-2023.11，植物单细胞APA图谱及其非生物胁迫响应机制，主持；
l 国家自然科学基金青年项目，2019.01-2021.12，基于单细胞转录组数据的APA位点建模与动态调控研究，主持；
l 国家自然科学基金面上项目，2019.01-2022.12，集成单细胞转录组数据的选择性多聚腺苷化网络建模研究，参与；
l 中央高校基本科研项目，2020.01-2022.12，植物细胞响应环境胁迫的分子机制，主持。
l Natural Science Foundation of Fujian Province of China, 2020.11-2023.11, Alternative polyadenylation landscapes of plants and its response mechanisms to abiotic stresses at single cell resolution, Principal Investigator;
l National Natural Science Foundation of China, 2019.01-2021.12, Modeling the alternative polyadenylation sites and dynamics based on single cell RNA-seq data, Principal Investigator;
l National Natural Science Foundation of China, 2019.01-2022.12, Network modeling of alternative polyadenylation by integrating single-cell transcriptome data, Major Participant;
l Fundamental Research Funds for the Central Universities in China, 2020.01-2022.12, The molecular mechanisms of plant cells in response to environmental stress, Principal Investigator.
荣誉奖励
