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、中美植物与医学健康联合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)植物基因组及大数据育种技术;(2)组学大数据分析方法、数据库与工具;(3)植物比较医学与健康。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、单细胞、三维基因组非编码RNA等生物信息学分析方法及其工具、基于组学数据的农产品制品安全评价、动植物肿瘤发生等保守遗传机制、植物跨界调控等研究。[简介] [全家福][公众号]

The Bioinplant lab is a part of Institute of Crop Sciences, Institute of Bioinformatics, IBM Biocomputing Laboratory and Sino-US Plant and Health Medicine Joint Reasearch Center, Zhejiang University. Our purpose is to further knowledge of genomes for crop breeding and complex traits/diseases, particularly through approaches of bioinformatics and omics. Our current research interests focus on (1) genomes of crops and their relatives and approaches to bridge the gap between genomics and crop improvement, such as genome-based breeding techniques; (2) Algorithms, databases, bioinformatic tools for omic data from single-cells, 3D genomes, etc.; (3) plant comparative medicine and health, such as comparative studies on diseases (tumors, scar, etc) in both plant and human, cross-talk of plant genetic elements (miRNA) in human, omic data-based approaches for safety evaluation of agricultural products.


最新消息(News)
Ø 心怀“国之大者”,他们志在为民族种业装上更多“浙大芯”! (2021-10-21)
Ø 世界粮食日,与农学院樊龙江教授面对面 (2021-10-18)
Ø 吴朝晖校长莅临指导设计育种计算平台建设(2021-10-12)
Ø 华大生命科学研究院院长徐讯来访进行学术交流(2021-10-03)
Ø 祝贺!博士生陈洪瑜获得浙江大学2021年度争创优博论文计划资助(2021-07-05)
Ø 浙江大学2021年招生宣传片——《新生》(本实验室参与拍摄)(2021-06-13)
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教学材料(Courses)
Ø 《生物信息学》(第二版),樊龙江主编,2021;     致敬经典:《生物信息学》(第二版)出版!     [后记——纪念郝柏林院士]
Ø 《植物基因组学》,樊龙江主编,2020; 图片下载 ;    重磅!《植物基因组学》出版;[韩斌院士序] ;[后记]
Ø 《生物信息学札记》(樊龙江,2001,2005,2010)
Ø 本实验室公众号:生信大讲堂
Ø 韩斌院士谈作物学学科发展方向与农学专业
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数据库与生物信息学工具 (Databases and Tools)
PlantscRNAdb: A database for plant single-cell RNA analysis
RiceRelativesGD: A database of rice relatives for rice research
PlantcircBase: A database for plant circular RNAs
PcircRNA-finder: A program to identify circular RNAs in plants
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近期发表论文 (Recent Publications)

Effects of sample size on plant single-cell RNA profiling. Hongyu Chen, Yang Lv, Xinxin Yin, Xi Chen, Qinjie Chu, Qian-Hao Zhu, Longjiang Fan, Longbiao Guo*. Current Issues in Molecular Biology, 2021.doi:https://doi.org/10.3390/cimb43030119

Recent origination of circular RNAs in plants. Chu, Qinjie; Ding, Yuwen; Xu, Xiaoxu ; Ye, Chuyu; Zhu, Qian-Hao; Guo, Longbiao; Fan, Longjiang*. New Phytologist, 2021. doi:https://doi.org/10.1111/nph.17798

Large-scale identification of plant miRNAs in mammals implicates their dietary intake. Xi Chen, Lu Liu, Qinjie Chu, Shuo Sun, Yixuan Wu, Zhou Tong, Weijia Fang, Michael P. Timko, Weijia Fang, and Longjiang Fan*. PLOS One, 2021. doi:https://doi.org/10.1371/journal.pone.0257878

The complete chloroplast genome of Echinochloa haploclada. Bowen Jiang, Sangting Lao, Dongya Wu, Longjiang Fan, Chu-Yu Ye*. Mitochondrial DNA Part B, 2021. doi:https://doi.org/10.1080/23802359.2021.1982654

The complete chloroplast genome of weedy rice Oryza sativa f. spontanea. Chenfeng Dong, Yiyu Hu, Chuyu Ye, Longjiang Fan & Longbiao Guo*. Mitochondrial DNA Part B, 2021. doi:https://doi.org/10.1080/23802359.2021.1977197

Signaling pathway perturbation analysis for assessment of biological impact of cigarette smoke on lung cells. Hongyu Chen , Xi Chen, Yifei Shen, Xinxin Yin, Fangjie Liu, Lu Liu, Jie Yao, Qinjie Chu, Yaqin Wang, Hongyan Qi, Michael P. Timko, Weijia Fang, Longjiang Fan*. Scientific Reports, 2021. doi:https://doi.org/10.1038/s41598-021-95938-z

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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]
✽ Red rice / weedy rice [RiceRelativesGD]
✽ Barnyard millet / barnyardgrass (Echinochloa) [RiceRelativesGD]
✽ Oilseed rape [BnPedigome][BRAD][GENOSCOPE]
✽ Gu/Jiaobai (Zizania) [RiceRelativesGD]
✽ Tobacco [Sol Genomics]
✽ Bryophyte (Calohypnum, formely Hypnum ) [BIGD] [RiceRelativesGD]
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

实验室视频与海报 (Video & Poster)
Video
Poster

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: June, 2021, bioinplant@zju.edu.cn