 Bioinplant Lab |
The Bioinplant lab is a part of Institute of Crop Sciences, Institute of Bioinformatics, IBM Biocomputing Laboratory and Research Center for Air Pollution and Health, Zhejiang University. Our purpose is to further knowledge of genes and genomes for crop breeding and complex traits/diseases, particularly through approaches of bioinformatics, genomics and genetics. Our current research interests focus on (1) genomes of crops and their relatives; (2) approaches to bridge the gap between genomics and crop improvement, such as genomic big data-based breeding techniques; (3) non-coding RNA basis for a complex trait and bioinformatic methods for identification of epigenetic elements; (4) omic data-based approaches/bioinformatic tools for evaluation of crop safety and health. [Poster] [Family] |
|
|
| 最新消息（News） |
| Ø 祝贺本实验室硕士研究生朱新恬顺利完成论文答辩（2019-03-09） |
| Ø 樊龙江教授任暄谷农业创新研究院院长（2019-03-03） |
| Ø 回首2018，展望2019 —— Bioinplant 2018年会小记（2019-02-02） |
| Ø 中国农业大学孔垂华教授来访（2018-12-15） |
| Ø 我实验室发文阐述植物环形RNA特征（2018-11-27） |
| Ø 新西兰植物和食品研究所高级生物信息学家Cecilia Deng来访（2018-11-21） |
| >> more |
|
|
| 教学材料（Courses） |
Ø
《生物信息学札记（第4版）》；《生物信息学》，樊龙江主编，2017；[郝柏林院士序言]；[亚马逊在线购买]
 |
| Ø 实验室公众号生信入门好文推荐 |
| Ø 友情链接：基因课（张旭东） |
| Ø 经典论文翻译 |
| Ø Classical Articles in Bioinformatics and Genomics |
| >> more |
|
|
| 数据库与生物信息学工具 （Databases and Tools） |
| RiceRelativesGD: a database of rice relatives for rice breeding |
| PlantcircBase：a database for plant circular RNAs |
| PcircRNA-finder：a program to identify circular RNAs in plants |
| eTM_finder：a tool to predict eTMs (endogenous target mimics) of miRNAs in plants |
| >> more |
|
|
| 近期发表论文 （Recent Publications） |
Bi-directional selection in upland rice leads to its adaptive differentiation from lowland rice on drought resistance and productivity. Hui Xia, Zhi Luo, Jie Xiong, Xiaosong Ma, Qiaojun Lou, Haibin Wei, Jie Qiu, Hua Yang, Guolan Liu, Longjiang Fan, Liang Chen, Lijun Luo*. Molecular Plant, 2018. doi: https://doi.org/10.1016/j.molp.2018.12.011 [PDF] |
Characteristics of Plant Circular RNAs. Chu Qinjie, Bai Panpan, Zhu Xintian, Zhang Xingchen, Mao Lingfeng, Zhu Qian-Hao, Fan Longjiang, Ye Chuyu*. Briefings in Bioinformatics, 2018. doi: 10.1093/bib/bby111 [PDF] |
Genome-wide identification of oil biosynthesis-related long non-coding RNAs in allopolyploid Brassica napus. Enhui Shen#, Xintian Zhu#, Shuijin Hua, Hongyu Chen, Chuyu Ye, Longhua Zhou, Qing Liu, Qian-Hao Zhu, Longjiang Fan and Xi Chen*. BMC Genomics, 2018. doi: https://doi.org/10.1186/s12864-018-5117-8 [PDF] |
Genomic clues for crop-weed interactions and evolution. Guo Longbiao#, Jie Qiu#, Lin-Feng Li, Baorong Lu, Kenneth Olsen and Longjiang Fan*. Trends in Plant Science, 2018. doi: https://doi.org/10.1016/j.tplants.2018.09.009 [PDF] |
Genome-wide selection footprints and deleterious variations in young Asian allotetraploid rapeseed. Jun Zou#, Lingfeng Mao#, Jie Qiu#, Meng Wang, Zhesi He, Lei Jia, Dongya Wu, Yongji Huang, Meihong Chen, Yifei Shen, Enhui Shen, Ruiyuan Li, Dandan Hu, Kai Wang, LeiShi, Chuyu Ye, Ian Bancroft, Graham King, Jinling Meng and Longjiang Fan*. bioRxiv, 2018. doi: https://doi.org/10.1101/412551 [PDF] |
The red bayberry genome and genetic basis of sex determination. Hui-Min Jia#, Hui-Juan Jia#, Qing-Le Cai#, Yan Wang, Hai-Bo Zhao, Wei-Fei Yang, Guo-Yun Wang, Ying-Hui Li, Dong-Liang Zhan, Yu-Tong Shen, Qing-Feng Niu, Le Chang, Jie Qiu, Lan Zhao, Han-Bing Xie, Wan-Yi Fu, Jing Jin, Xiong-Wei Li, Yun Jiao, Chao-Chao Zhou, Ting Tu, Chun-Yan Chai, Jing-Long Gao, Long-Jiang Fan, Eric van de Weg, Jun-Yi Wang* and Zhong-Shan Gao*. Plant Biotechnology Journal, 2018. doi: 10.1111/pbi.12985 [PDF] |
| >> more |
|
|
|
重要链接 （Links） |
| Important Databases and Bioinformatics Portals |
| ✽ NCBI |
| ✽ EMBL |
| ✽ Expasy |
| ✽ JCVI |
| ✽ CBI-PU |
| Crop and Relatives Genomes |
| ✽ Rice [MSU][RAP-DB][RIGW][RiceRelativesGD] |
| ✽ Weedy rice [RiceRelativesGD] |
| ✽ Barnyardgrass (Echinochloa) [RiceRelativesGD] |
| ✽ Oilseed rape [Bnpedigome][BRAD][GENOSCOPE] |
| ✽ Gu/Jiaobai (Zizania) [RiceRelativesGD] |
| ✽ Tobacco [Sol Genomics] |
| Links at ZJU |
| ✽ 浙江大学-暄谷农业联合创新中心 (Zhejiang University - Xuan Gu Agricultural Joint Innovation Center) |
| ✽ 作物科学研究所 (Institute of Crop Science) |
| ✽ 生物信息学研究所 (Institute of Bioinformatics) |
| ✽ IBM生物计算实验室 (IBM Biocomputational Laboratory) |
| ✽ 中美作物分子育种联合实验室 (Sino-US Crop Molecular Breeding Joint Laboratory) |
| ✽ 沃森基因组研究院 (James D. Watson Institute of Genome Sciences) |
| Industrial Cooperations |
| ✽ 暄谷农业 (Xuan Gu Agricultural Technology Group Co., Ltd.) |
| ✽ 圣庭生物 (Zhejiang Shengting Biotech Co., Ltd.) |
|
|
| 实验室成员 （Staff） |
| Staff of Bioinplant |
| 实验室照片 （Photos） |
| Pictures |
| Genome and Bioinformatics Cartoons |
|
|
| 联系我们 （Contact Us） |
| Professor Fan （樊龙江） Email: fanlj@zju.edu.cn |
| bioinplant@zju.edu.cn (实验室）Tel: 86-571-88982730 |
Last updated: March, 2019, bioinplant@zju.edu.cn