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Ye Yin
Researcher at Beijing Genomics Institute
Publications - 42
Citations - 31154
Ye Yin is an academic researcher from Beijing Genomics Institute. The author has contributed to research in topics: Genome & Whole genome sequencing. The author has an hindex of 28, co-authored 40 publications receiving 22902 citations. Previous affiliations of Ye Yin include University of Copenhagen & Beijing Institute of Genomics.
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Journal ArticleDOI
The oral and gut microbiomes are perturbed in rheumatoid arthritis and partly normalized after treatment
Xuan Zhang,Dongya Zhang,Huijue Jia,Qiang Feng,Donghui Wang,Di Liang,Xiangni Wu,Junhua Li,Longqing Tang,Yin Li,Zhou Lan,Bing Chen,Yanli Li,Huanzi Zhong,Hailiang Xie,Zhuye Jie,Weineng Chen,Shanmei Tang,Xiaoqiang Xu,Xiaokai Wang,Xianghang Cai,Liu Sheng,Yan Xia,Jiyang Li,Xingye Qiao,Jumana Y. Al-Aama,Hua Chen,Li Wang,Qingjun Wu,Fengchun Zhang,Wenjie Zheng,Yongzhe Li,Mingrong Zhang,Guangwen Luo,Wenbin Xue,Liang Xiao,Jun Li,Wanting Chen,Xun Xu,Ye Yin,Huanming Yang,Jian Wang,Karsten Kristiansen,Liang Liu,Ting Li,Qingchun Huang,Yingrui Li,Jun Wang +47 more
TL;DR: Altered alterations in the gut, dental or saliva microbiome distinguished individuals with RA from healthy controls, were correlated with clinical measures and could be used to stratify individuals on the basis of their response to therapy.
Journal ArticleDOI
Genomic variation in 3,010 diverse accessions of Asian cultivated rice
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,Dario Copetti,Millicent D. Sanciangco,Kevin Palis,Jianlong Xu,Chen Sun,Binying Fu,Hongliang Zhang,Yongming Gao,Xiuqin Zhao,Fei Shen,Xiao Cui,Hong Yu,Zichao Li,Miaolin Chen,Jeffrey Detras,Yongli Zhou,Xinyuan Zhang,Yue Zhao,Dave Kudrna,Chunchao Wang,Rui Li,Jia Ben,Jinyuan Lu,Xianchang He,Zhaotong Dong,Jiabao Xu,Yanhong Li,Miao Wang,Jianxin Shi,Jing Li,Dabing Zhang,Seunghee Lee,Wushu Hu,Alexander Poliakov,Inna Dubchak,Inna Dubchak,Victor Jun Ulat,Frances Nikki Borja,John Robert Mendoza,Jauhar Ali,Qiang Gao,Yongchao Niu,Zhen Yue,Ma. Elizabeth B. Naredo,Jayson Talag,Xueqiang Wang,Jinjie Li,Xiaodong Fang,Ye Yin,Jean-Christophe Glaszmann,Jianwei Zhang,Jiayang Li,Ruaraidh Sackville Hamilton,Rod A. Wing,Rod A. Wing,Jue Ruan,Gengyun Zhang,Chaochun Wei,Nickolai Alexandrov,Kenneth L. McNally,Zhikang Li,Hei Leung +73 more
TL;DR: Analyses of genetic variation and population structure based on over 3,000 cultivated rice (Oryza sativa) genomes reveal subpopulations that correlate with geographic location and patterns of introgression consistent with multiple rice domestication events.
Journal ArticleDOI
A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium
Zhenqiang Su,Paweł P. Łabaj,Sheng Li,Jean Thierry-Mieg,Danielle Thierry-Mieg,Wei Shi,Charles Wang,Gary P. Schroth,Robert Setterquist,John F. Thompson,Wendell D. Jones,Wenzhong Xiao,Wenzhong Xiao,Weihong Xu,Roderick V. Jensen,Reagan Kelly,Joshua Xu,Ana Conesa,Cesare Furlanello,Hanlin Gao,Huixiao Hong,Nadereh Jafari,Stan Letovsky,Yang Liao,Fei Lu,Edward J. Oakeley,Zhiyu Peng,Craig A. Praul,Javier Santoyo-Lopez,Andreas Scherer,Tieliu Shi,Gordon K. Smyth,Frank Staedtler,Peter Sykacek,Xin Xing Tan,E. Aubrey Thompson,Jo Vandesompele,May D. Wang,Jian Wang,Russell D. Wolfinger,Jiri Zavadil,Jiri Zavadil,Scott S. Auerbach,Wenjun Bao,Hans Binder,Thomas M. Blomquist,Murray H. Brilliant,Pierre R. Bushel,Weimin Cai,Jennifer G. Catalano,Ching-Wei Chang,Tao Chen,Geng Chen,Rong Chen,Marco Chierici,Tzu Ming Chu,Djork-Arné Clevert,Youping Deng,Adnan Derti,Viswanath Devanarayan,Zirui Dong,Joaquín Dopazo,Tingting Du,Hong Fang,Yongxiang Fang,Mario Fasold,Anita Fernandez,Matthias Fischer,Pedro Furió-Tarí,James C. Fuscoe,Florian Caimet,Stan Gaj,Jorge Gandara,Huan Gao,Weigong Ge,Yoichi Gondo,Binsheng Gong,Meihua Gong,Zhuolin Gong,Bridgett Green,Chao Guo,Lei Guo,Li Wu Guo,James Hadfield,Jan Hellemans,Sepp Hochreiter,Meiwen Jia,Min Jian,Charles D. Johnson,Suzanne Kay,Jos C. S. Kleinjans,Samir Lababidi,Shawn Levy,Quan Zhen Li,Li Li,Peng Li,Yan Li,Haiqing Li,Jianying Li,Shiyong Li,Simon Lin,Francisco Javier López,Xin Lu,Heng Luo,Xiwen Ma,Joseph Meehan,Dalila B. Megherbi,Nan Mei,Bing Mu,Baitang Ning,Akhilesh Pandey,Javier Pérez-Florido,Roger Perkins,Ryan Peters,John H. Phan,Mehdi Pirooznia,Feng Qian,Tao Qing,Lucille Rainbow,Philippe Rocca-Serra,Laure Sambourg,Susanna-Assunta Sansone,Scott Schwartz,Ruchir R. Shah,Jie Shen,Todd M. Smith,Oliver Stegle,Nancy Stralis-Pavese,Elia Stupka,Yutaka Suzuki,Lee Thomas Szkotnicki,Matthew Tinning,Bimeng Tu,Joost H.M. van Delft,Alicia Vela-Boza,Elisa Venturini,Stephen J. Walker,Liqing Wan,Wei Wang,Jinhui Wang,Jun Wang,Jun Wang,Eric D. Wieben,James C. Willey,Po Yen Wu,Jiekun Xuan,Yong Yang,Zhan Ye,Ye Yin,Ying Yu,Yate Ching Yuan,John Zhang,Ke Zhang,Wenqian Zhang,Wenwei Zhang,Yanyan Zhang,Chen Zhao,Yuanting Zheng,Yiming Zhou,Paul Zumbo,Weida Tong,David P. Kreil,David P. Kreil,Christopher E. Mason,Leming Shi +164 more
TL;DR: The complete SEQC data sets, comprising >100 billion reads, provide unique resources for evaluating RNA-seq analyses for clinical and regulatory settings, and measurement performance depends on the platform and data analysis pipeline, and variation is large for transcript-level profiling.
Journal ArticleDOI
Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA
Emilia Huerta-Sanchez,Xin Jin,Asan,Zhuoma Bianba,Benjamin M. Peter,Nicolas Vinckenbosch,Yu Liang,Xin Yi,Mingze He,Mehmet Somel,Peixiang Ni,Bo Wang,Xiaohua Ou,Huasang,Jiangbai Luosang,Zha Xi Ping Cuo,Kui Li,Guoyi Gao,Ye Yin,Wei Wang,Xiuqing Zhang,Xun Xu,Huanming Yang,Yingrui Li,Jian Wang,Jun Wang,Rasmus Nielsen +26 more
TL;DR: Re-sequencing the region around EPAS1 in 40 Tibetan and 40 Han individuals finds that this gene has a highly unusual haplotype structure that can only be convincingly explained by introgression of DNA from Denisovan or Denisovan-related individuals into humans.
Journal ArticleDOI
The draft genome of a diploid cotton Gossypium raimondii.
Kunbo Wang,Zhiwen Wang,Fuguang Li,Wuwei Ye,Junyi Wang,Guoli Song,Zhen Yue,Lin Cong,Haihong Shang,Shilin Zhu,Changsong Zou,Qin Li,Youlu Yuan,Cairui Lu,Hengling Wei,Caiyun Gou,Zheng Zequn,Ye Yin,Xueyan Zhang,Kun Liu,Bo Wang,Chi Song,Nan Shi,Russell J. Kohel,Richard G. Percy,John Z. Yu,Yu-Xian Zhu,Jun Wang,Shuxun Yu +28 more
TL;DR: Cotton, and probably Theobroma cacao, are the only sequenced plant species that possess an authentic CDN1 gene family for gossypol biosynthesis, as revealed by phylogenetic analysis.