Bioinplant Lab of Zhejiang University
 

本实验室为浙江大学作物科学研究所、生物信息学研究所、IBM生物计算实验室、空气污染与健康研究中心重要组成部分。利用生物信息学和基因组等组学技术优势,我们主要开展(1)作物基因组及大数据育种技术研究;(2)非编码RNA鉴定与分析;(3)健康与作物安全评价研究。具体包括作物及其野生植物基因组解析、基因组为导向的大数据育种技术、非编码RNA生物信息学鉴定方法及其在复杂性状发生的遗传机制、基于组学数据的烟草制品等安全评价、健康风险的生物信息学相关方法等研究。

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 樊龙江教授主编《植物基因组学》正式出版!(2020-03-31)
Ø 浙江大学樊龙江团队揭示全球水稻趋同野化的进化机制!(2020-03-27)【科学网 新闻报道】
Ø 祝贺本实验室博士生Most. Humaira Sultana及硕士生刘芳杰、陈美虹顺利完成论文答辩(2020-03-18)
Ø 美国科学人《The Scientist》杂志撰文介绍本实验室瓦维洛夫拟态研究成果(2020-03-05)
Ø 不忘初心,砥砺前行——记2019年实验室年会(2020-01-18)
Ø 樊龙江教授团队Nature Ecology & Evolution发表论文揭示作物拟态遗传机制!(2019-09-17)【国内外新闻报道】【BEHIND THE PAPER】【《影响世界的中国植物》纪录片《水稻》一集】【F1000Prime推荐】【Nature Plants Highlights】【中文翻译版】
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教学材料(Courses)
Ø 《植物基因组学》,樊龙江主编,2020重磅!《植物基因组学》出版[韩斌院士序];[科学商城在线购买]
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 [韩斌院士谈作物学学科发展方向][韩斌院士谈农学专业]
Ø 大型记录片《影响世界的中国植物》第二集《水稻》 [新闻链接]
Ø 实验室公众号生信入门好文推荐
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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
BnPedigome: a genomic database for the pedigrees and breeding of Brassica napus
PcircRNA-finder:a program to identify circular RNAs in plants
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近期发表论文 (Recent Publications)

Diverse genetic mechanisms underlie worldwide convergent rice feralization. Jie Qiu, Lei Jia, Dongya Wu, Xifang Weng, Lijuan Chen, Jian Sun, Meihong Chen, Lingfeng Mao, Bowen Jiang, Chuyu Ye, Guilherme Turra, Longbiao Guo, Guoyou Ye, Qianhao Zhu, Toshiyuki Imaizumi, Beng-Kah Song, Laura Scarabel, Aldo Merotto, Kenneth Olsen*, Longjiang Fan*. Genome Biology, 2020. doi:https://doi.org/10.1186/s13059-020-01980-x [PDF]

TOD-CUP: A gene expression rank-based majority vote algorithm for tissue origin diagnosis of cancers of unknown primary. Shen Yifei, Qinjie Chu, Xinxin Yin, Yinjun He, Panpan Bai, Yunfei Wang, Weijia Fang, Michael P. Timko, Longjiang Fan*, Weiqin Jiang*. Briefings in Bioinformatics, 2020. In press

A transcriptomic profile of topping responsive non-coding RNAs in tobacco roots (Nicotiana tabacum). Xi Chen, Shuo Sun, Fangjie Liu, Enhui Shen, Lu Liu, Chuyu Ye, Bingguang Xiao, Michael P. Timko, Qian-Hao Zhu, Longjiang Fan* & Peijian Cao*. BMC Genomics, 2019. doi:https://doi.org/10.1186/s12864-019-6236-6 [PDF]

AKR, a novel mechanism involved in glyphosate metabolism and resistance in Echinochloa colona. Pan Lang, Qin Yu*, Heping Han, Lingfeng Mao, Alex Nyporko, Longjiang Fan*, Lianyang Bai*, and Stephen Powles. Plant Physiology, 2019. doi:https://doi.org/10.1104/pp.19.00979 [PDF]

Genomic evidence of human selection on Vavilovian mimicry. Ye Chu-Yu, Wei Tang, Dongya Wu, Lei Jia, Jie Qiu, Meihong Chen, Lingfeng Mao, Feng Lin, Haiming Xu, Xiaoyue Yu, Yongliang Lu, Yonghong Wang, Kenneth M Olsen, Michael P. Timko, Longjiang Fan*. Nature Ecology & Evolution, 2019. doi: https://doi.org/10.1038/s41559-019-0976-1 [PDF] [Behind The Paper]] [Newswise Report] [F1000Prime] [Nature Plants Highlights]

RiceRelativesGD: a genomic database of rice relatives for rice research. Mao Lingfeng, Chen Meihong, Chu Qinjie, Jia Lei, Most. Humaira Sultana, Wu Dongya, Kong X, Qiu Jie, Ye Chu-Yu, Chen Xi*, and Fan Longjiang. Database, 2019. doi:https://doi.org/10.1093/database/baz110 [PDF]

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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][PlantcircBase]
✽ Weedy rice [RiceRelativesGD]
✽ Barnyardgrass (Echinochloa) [RiceRelativesGD]
✽ Oilseed rape [BnPedigome][BRAD][GENOSCOPE]
✽ Gu/Jiaobai (Zizania) [RiceRelativesGD]
✽ Tobacco [Sol Genomics]
Links at ZJU
✽ 中美植物与健康医学联合研究中心 (Sino-US Plant and Health Medicine Joint Reasearch 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)

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: August, 2019, bioinplant@zju.edu.cn