Introduction

　　Jue Ruan, Research Professor, Doctoral Advisor, Director of the Omics Technology Research Center, Chief scientist of Agricultural Genomics Technology Innovation & Application Innovative Group, His research focuses on Methodology development in the Genome Field, specially on  genome  sequence alignment, genome assemble, variation detection of somatic cell, etc. He has published 16 SCI papers (the first author or corresponding author) in journals including Nature, Nature Methods, Nature Genetics, Genome Research, PNAS, Nature Communications.  Accumulating more than 14000 citations to date. He has been granted 4 patents for innovation. He is the winner of National Excellent Youth Fund, selected as the "Young Talents" of Chinese Academy of Agricultural Sciences, owner of the 18th Chinese Outstanding Patent Invention & Industrial Design in 2016, awarded with “the Excellent Youth Agricultural Scientist” in 2018 by Ministry of Agriculture and Rural Affairs, China，and obtained Guangdong Province's Youth Award In 2019.

　　Working Experience

　　Agricultural Genomics Institute at Shenzhen-CAAS             

　　research Professor                                                                   2017.5 – Present

　　Shenzhen Agricultural Genomics Institute at Shenzhen-CAAS   

　　research Professor                                                                   2014.5 – 2017.4

　　Chinese Academy of Sciences      

　　associate professo                                                                   2012.1 – 2014.4

　　Chinese Academy of Sciences      

　　research associate                                                                   2009.7 – 2011.12

　　Education Experience

　　Chinese Academy of Sciences Bioinformatics    Ph.D                    2004.1–2009.7

　　Nankai University                   Science of Life  Master                 2000.9–2004.7

　　Research Interest

　　Our team focuses on the development of novel genomic technologies on genome assembly, ultra-low frequency mutation detections, genomic structure variation detections, digital DNA data storage, and genome analysis. Specifically, we work on 1)developing efficient algorithms of assembling long sequencing reads in order to reduce computational burden under heavy workloads; 2) increasing the accuracy and sensitivity of detecting structural variations in genomics; 3) optimizing the technology of detecting and tracking extremely low-frequency mutations; 4) applying the technologies and methods in genomics to other scientific research with aims to better understand and help solve important scientific problems.

　　Major Achievements

　　We developed multiple lines of approaches in solving important problems in genomics. Specifically

　　We proposed a novel approach of analyzing the continuous 256 bases as a mapping unit (kmer-bin-mapping, KBM) in computing to increase the speed of reads, developed software WTDBG for long reads assembly with high efficiency, and reduced of data analysis time to less than data output time for the first time. We designed novel algorithms, NovoBreak and O2N-Seq, which significantly improved the accuracy and sensitivity in detecting structural variations and extremely low-frequency mutations, and increased the usability of collected data by 10-30 times compared to traditional approaches; We collaborated with several academic institutes on the genomics research, and published papers in high-impact journals including Nature、Nature Genetics、Nature Methods、Nature Communications、National Science Review、Genome Research.

　　Selected Publication

　　1.Jue Ruan and Heng Li.“Fast and accurate long-read assembly with wtdbg2.”Nature Methods,2019.12.10

　　2.Mao Qin, Shigang Wu, Alun Li, Fengli Zhao, Hu Feng, Lulu Ding and Jue Ruan.“LRScaf: improving draft genomes using long noisy reads.”BMC Genomics,2019.20(1)955.

　　3.WenSheng Wang, Ramil Mauleon, ZhiQiang Hu, Dmytro Chebotarov, ShuaiShuai Tai, ZhiChao Wu, Min Li, TianQing Zheng, Roven Rommel Fuentes, Fan Zhang, Locedie Mansueto, Dario Copetti,...Ruaraidh Sackville Hamilton; , Rod A. Wing  ,Jue Ruan. ,Gengyun Zhang,Chaochun Wei, Nickolai Alexandrov, Kenneth L. McNally, Zhikang Li& Hei Leung."Genomic variation in 3,010 diverse accessions of Asian cultivated rice." Nature,2018.557 (7703): 43-49.(Jue Ruan is the co-corresponding author)

　　4.Guo-Dong Wang, Xiu-Juan Shao, Bing Bai, Junlong Wang,Xiaobo Wang, Xue Cao, Yan-Hu Liu, Xuan Wang1, Ting-Ting Yin,Shao-Jie Zhang, Yan Lu, Zechong Wang, Lu Wang, Wenming Zhao,Bing Zhang, Jue Ruan and Ya-Ping Zhang,Structural variation during dog domestication: insights from gray wolf and dhole genomes.National Science Review,2018,6,19.

　　5.Kaile Wang, Shujuan Lai, Xiaoxu Yang, Tianqi Zhu, Xuemei Lu, Chung-I Wu, and Jue Ruan. Ultrasensitive and High-Efficiency Screen of de Novo Low-Frequency Mutations by O2n-Seq.Nature Communications, 2017,5,15335.

　　6.Zechen Chong, Jue Ruan, Min Gao, et al. novoBreak: local assembly for breakpoint detection in cancer genomes. Nature Methods, 2016, 11: 65-67.

　　7.Li Yu, Guodong Wang, Jue Ruan, Yongbin Chen, et al. Genomic analysis of snub-nosed monkeys (Rhinopithecus) identifies genes and processes related to high-altitude adaptation. Nature Genetics, 2016, 48:947-952.

　　8.Kaile,Wang Qin Ma, Lan Jiang , Shujuan Lai, Xuemei Lu, Yali Hou, Chung-I Wu, Jue Ruan. Ultra-precise detection of mutations by droplet-based amplification of circularized DNA.BMC Genomics, 2016, 17: 214-214.

　　Selected Patent

　　1. ZL201410448968.0，改进的测序文库及其制备和应用，王开乐；阮珏；吕雪梅；吴仲义

　　2. ZL201410448896.X，一种DNA扩增方法，阮珏；王开乐；沈栩吕；雪梅；吴仲义

　　3. CN201310651462.5，测序文库及其制备和应用，阮珏；王开乐；吕雪梅；吴仲义 

　　4. ZL200810218338.9，一种短序列组装中构建图的方法及系统，李瑞强；阮珏；朱红梅；李松岗；王俊；杨焕明；汪建