Jing-Fa Xiao

Publication Activity (10 Years)

Years Active: 2002-2023
Publications (10 Years): 29

Top Topics

Sequenced Genomes

Association Studies

Top Venues

Nucleic Acids Res.

Genom. Proteom. Bioinform.

Briefings Bioinform.

Publications

Shuai Jiang, Qiheng Qian, Tongtong Zhu, Wenting Zong, Yunfei Shang, Tong Jin, Yuansheng Zhang, Ming Chen, Zishan Wu, Yuan Chu, Rongqin Zhang, Sicheng Luo, Wei Jing, Dong Zou, Yiming Bao, Jing-Fa Xiao, Zhang Zhang
Cell Taxonomy: a curated repository of cell types with multifaceted characterization. Nucleic Acids Res. 51 (D1) (2023)
Lina Ma, Dong Zou, Lin Liu, Huma Shireen, Amir Ali Abbasi, Alex Bateman, Jing-Fa Xiao, Wenming Zhao, Yiming Bao, Zhang Zhang
Database Commons: A Catalog of Worldwide Biological Databases. Genom. Proteom. Bioinform. 21 (5) (2023)
Yadong Zhang, Hao Zhang, Zaichao Zhang, Qiheng Qian, Zhewen Zhang, Jing-Fa Xiao
ProPan: a comprehensive database for profiling prokaryotic pan-genome dynamics. Nucleic Acids Res. 51 (D1) (2023)
Mingming Lu, Yadong Zhang, Fengchun Yang, Jialin Mai, Qianwen Gao, Xiaowei Xu, Hongyu Kang, Li Hou, Yunfei Shang, Qiheng Qain, Jie Liu, Meiye Jiang, Hao Zhang, Congfan Bu, Jinyue Wang, Zhewen Zhang, Zaichao Zhang, Jingyao Zeng, Jiao Li, Jing-Fa Xiao
TWAS Atlas: a curated knowledgebase of transcriptome-wide association studies. Nucleic Acids Res. 51 (D1) (2023)
Guangya Duan, Gangao Wu, Xiaoning Chen, Dongmei Tian, Zhaohua Li, Yanling Sun, Zhenglin Du, Lili Hao, Shuhui Song, Yuan Gao, Jing-Fa Xiao, Zhang Zhang, Yiming Bao, Bixia Tang, Wenming Zhao
HGD: an integrated homologous gene database across multiple species. Nucleic Acids Res. 51 (D1) (2023)
Zhao Li, Lin Liu, Changrui Feng, Yuxin Qin, Jing-Fa Xiao, Zhang Zhang, Lina Ma
LncBook 2.0: integrating human long non-coding RNAs with multi-omics annotations. Nucleic Acids Res. 51 (D1) (2023)
Shuo Shi, Qi Wang, Yunfei Shang, Congfan Bu, Mingming Lu, Meiye Jiang, Hao Zhang, Shuhuan Yu, Jingyao Zeng, Zaichao Zhang, Zhenglin Du, Jing-Fa Xiao
TSomVar: a tumor-only somatic and germline variant identification method with random forest. Briefings Bioinform. 23 (5) (2022)
Yongbiao Xue, Yiming Bao, Zhang Zhang, Wenming Zhao, Jing-Fa Xiao, Shunmin He, Guoqing Zhang, Yixue Li, Guoping Zhao, Runsheng Chen, Jingyao Zeng, Yadong Zhang, Yunfei Shang, Jialin Mai, Shuo Shi, Mingming Lu, Congfan Bu, Zhewen Zhang, Zhenglin Du, Yinying Wang, Hongen Kang, Tianyi Xu, Lili Hao, Peilin Jia, Shuai Jiang, Qiheng Qian, Tongtong Zhu, Wenting Zong, Tong Jin, Yuansheng Zhang, Dong Zou, Qiang Du, Changrui Feng, Lina Ma, Sisi Zhang, Anke Wang, Lili Dong, Yanqing Wang, Wan Liu, Xing Yan, Yunchao Ling, Zhihua Zhou, Wang Kang, Tao Zhang, Shuai Ma, Haoteng Yan, Zunpeng Liu, Zejun Ji, Yusheng Cai, Si Wang, Moshi Song, Jie Ren, Qi Zhou, Jing Qu, Weiqi Zhang, Guanghui Liu, Xu Chen, Tingting Chen, Yanling Sun, Caixia Yu, Bixia Tang, Junwei Zhu, Shuang Zhai, Yubin Sun, Qiancheng Chen, Xiaoyu Yang, Xin Zhang, Zhengqi Sang, Yonggang Wang, Yilin Zhao, Huanxin Chen, Li Lan, Yingke Ma, Yaokai Jia, Xinchang Zheng, Meili Chen, Ming Chen, Guangyi Niu, Rong Pan, Wei Jing, Jian Sang, Chang Liu, Yujia Xiong, Mochen Zhang, Guoliang Wang, Lizhi Yi, Wei Zhao, Song Wu, Zhuang Xiong, Rujiao Li, Zheng Gong, Lin Liu, Zhao Li, Qianpeng Li, Sicheng Luo, Jiajia Wang, Yirong Shi, Honghong Zhou, Peng Zhang, Tingrui Song, Yanyan Li, Fei Yang, Mengwei Li, Zhaohua Li, Dongmei Tian, Xiaonan Liu, Cuiping Li, Xufei Teng, Shuhui Song, Yang Zhang, Ruru Chen, Rongqin Zhang, Feng Xu, Yifan Wang, Chenfen Zhou, Haizhou Wang, Andrew E. Teschendorff, Yungang He, Zhen Yang, Lun Li, Na Li, Ying Cui, Guangya Duan, Gangao Wu, Tianhao Huang, Enhui Jin, Hailong Kang, Zhonghuang Wang, Hua Chen, Mingkun Li, Wanshan Ning, Yu Xue, Yanhu Liu, Qijun Zhou, Xingyan Liu, Longlong Zhang, Bingyu Mao, Shihua Zhang, Yaping Zhang, Guodong Wang, Qianghui Zhu, Xin Li, Menghua Li, Yuanming Liu, Hong Luo, Xiaoyuan Wu, Haichun Jing, Yitong Pan, Leisheng Shi, Zhixiang Zuo, Jian Ren, Xinxin Zhang, Yun Xiao, Xia Li, Dan Liu, Chi Zhang, Zheng Zhao, Tao Jiang, Wanying Wu, Fangqing Zhao, Xianwen Meng, Di Peng, Hao Luo, Feng Gao, Shaofeng Lin, Chuijie Liu, Anyuan Guo, Hao Yuan, Tianhan Su, Yong E. Zhang, Yincong Zhou, Guoji Guo, Shanshan Fu, Xiaodan Tan, Weizhi Zhang, Mei Luo, Yubin Xie, Chenwei Wang, Xingyu Liao, Xin Gao, Jianxin Wang, Guiyan Xie, Chunhui Yuan, Feng Tian, Dechang Yang, Ge Gao, Dachao Tang, Wenyi Wu, Yujie Gou, Cheng Han, Qinghua Cui, Xiangshang Li, Chuan-Yun Li, Xiaotong Luo
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022. Nucleic Acids Res. 50 (D1) (2022)
Yuansheng Zhang, Dong Zou, Tongtong Zhu, Tianyi Xu, Ming Chen, Guangyi Niu, Wenting Zong, Rong Pan, Wei Jing, Jian Sang, Chang Liu, Yujia Xiong, Yubin Sun, Shuang Zhai, Huanxin Chen, Wenming Zhao, Jing-Fa Xiao, Yiming Bao, Lili Hao, Zhang Zhang
Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels. Nucleic Acids Res. 50 (D1) (2022)
Jingyao Zeng, Yadong Zhang, Yunfei Shang, Jialin Mai, Shuo Shi, Mingming Lu, Congfan Bu, Zhewen Zhang, Zaichao Zhang, Yang Li, Zhenglin Du, Jing-Fa Xiao
CancerSCEM: a database of single-cell expression map across various human cancers. Nucleic Acids Res. 50 (D1) (2022)
Meili Chen, Yingke Ma, Song Wu, Xinchang Zheng, Hongen Kang, Jian Sang, Xingjian Xu, Lili Hao, Zhaohua Li, Zheng Gong, Jing-Fa Xiao, Zhang Zhang, Wenming Zhao, Yiming Bao
Genome Warehouse: A Public Repository Housing Genome-scale Data. Genom. Proteom. Bioinform. 19 (4) (2021)
Yongbiao Xue, Yiming Bao, Zhang Zhang, Wenming Zhao, Jing-Fa Xiao, Shunmin He, Guoqing Zhang, Yixue Li, Guoping Zhao, Runsheng Chen, Shuhui Song, Lina Ma, Dong Zou, Dongmei Tian, Cuiping Li, Junwei Zhu, Zheng Gong, Meili Chen, Anke Wang, Yingke Ma, Mengwei Li, Xufei Teng, Ying Cui, Guangya Duan, Mochen Zhang, Tong Jin, Chengmin Shi, Zhenglin Du, Yadong Zhang, Chuandong Liu, Rujiao Li, Jingyao Zeng, Lili Hao, Shuai Jiang, Hua Chen, Dali Han, Tao Zhang, Wang Kang, Fei Yang, Jing Qu, Weiqi Zhang, Guang-Hui Liu, Lin Liu, Yang Zhang, Guangyi Niu, Tongtong Zhu, Changrui Feng, Xiaonan Liu, Yuansheng Zhang, Zhao Li, Ruru Chen, Qianpeng Li, Zhongyi Hua, Chao Jiang, Ziyuan Chen, Fangshu He, Yuyang Zhao, Yan Jin, Luqi Huang, Yuan Yuan, Chenfen Zhou, Qingwei Xu, Sheng He, Wei Ye, Ruifang Cao, Pengyu Wang, Yunchao Ling, Xing Yan, Qingzhong Wang, Qiang Du, Wenting Zong, Hongen Kang, Zhuang Xiong, Wendi Huan, Sirui Zhang, Qiguang Xia, Xiaojuan Fan, Zefeng Wang, Xu Chen, Tingting Chen, Sisi Zhang, Bixia Tang, Lili Dong, Zhewen Zhang, Zhonghuang Wang, Hailong Kang, Yanqing Wang, Song Wu, Ming Chen, Chang Liu, Yujia Xiong, Xueying Shao, Yanyan Li, Honghong Zhou, Xiaomin Chen, Yu Zheng, Quan Kang, Di Hao, Lili Zhang, Huaxia Luo, Yajing Hao, Peng Zhang, Zhi Nie, Shuhuan Yu, Jian Sang, Zhaohua Li, Xiangquan Zhang, Qing Zhou, Shuang Zhai, Yaping Zhang, Guodong Wang, Qianghui Zhu, Xin Li, Menghua Li, Jun Yan, Chen Li, Zhennan Wang, Xiangfeng Wang, Yuanming Liu, Hong Luo, Xiaoyuan Wu, Hai-Chun Jing, Lianhe Zhao, Jiajia Wang, Tinrui Song, Yi Zhao, Furrukh Mehmood, Shahid Ali, Amjad Ali, Shoaib Saleem, Irfan Hussain, Amir A. Abbasi, Zhixiang Zuo, Jian Ren, Xinxin Zhang, Yun Xiao, Xia Li, Yiran Tu, Yu Xue, Wanying Wu, Peifeng Ji, Fangqing Zhao, Xianwen Meng, Di Peng, Hao Luo, Feng Gao, Wanshan Ning, Shaofeng Lin, Teng Liu, An-Yuan Guo, Hao Yuan, Yong E. Zhang, Xiaodan Tan, Weizhi Zhang, Yubin Xie, Chenwei Wang, Chun-Jie Liu, De-Chang Yang, Feng Tian, Ge Gao, Dachao Tang, Lan Yao, Qinghua Cui, Ni A. An, Chuan-Yun Li, Xiaotong Luo
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. Nucleic Acids Res. 49 (Database-Issue) (2021)
Tingting Chen, Xu Chen, Sisi Zhang, Junwei Zhu, Bixia Tang, Anke Wang, Lili Dong, Zhewen Zhang, Caixia Yu, Yanling Sun, Lianjiang Chi, Huanxin Chen, Shuang Zhai, Yubin Sun, Li Lan, Xin Zhang, Jing-Fa Xiao, Yiming Bao, Zhang Zhang, Wenming Zhao
The Genome Sequence Archive Family: Toward Explosive Data Growth and Diverse Data Types. Genom. Proteom. Bioinform. 19 (4) (2021)
Meiye Jiang, Congfan Bu, Jingyao Zeng, Zhenglin Du, Jing-Fa Xiao
Applications and challenges of high performance computing in genomics. CCF Trans. High Perform. Comput. 3 (4) (2021)
Zhao Li, Lin Liu, Shuai Jiang, Qianpeng Li, Changrui Feng, Qiang Du, Dong Zou, Jing-Fa Xiao, Zhang Zhang, Lina Ma
LncExpDB: an expression database of human long non-coding RNAs. Nucleic Acids Res. 49 (Database-Issue) (2021)
Shuo Shi, Qiheng Qian, Shuhuan Yu, Qi Wang, Jinyue Wang, Jingyao Zeng, Zhenglin Du, Jing-Fa Xiao
RefRGim: an intelligent reference panel reconstruction method for genotype imputation with convolutional neural networks. Briefings Bioinform. 22 (6) (2021)
Zhang Zhang, Shuhui Song, Jun Yu, Wenming Zhao, Jing-Fa Xiao, Yiming Bao
The Elements of Data Sharing. Genom. Proteom. Bioinform. 18 (1) (2020)
Shuhui Song, Lina Ma, Dong Zou, Dongmei Tian, Cuiping Li, Junwei Zhu, Meili Chen, Anke Wang, Yingke Ma, Mengwei Li, Xufei Teng, Ying Cui, Guangya Duan, Mochen Zhang, Tong Jin, Chengmin Shi, Zhenglin Du, Yadong Zhang, Chuandong Liu, Rujiao Li, Jingyao Zeng, Lili Hao, Shuai Jiang, Hua Chen, Dali Han, Jing-Fa Xiao, Zhang Zhang, Wenming Zhao, Yongbiao Xue, Yiming Bao
The Global Landscape of SARS-CoV-2 Genomes, Variants, and Haplotypes in 2019nCoVR. Genom. Proteom. Bioinform. 18 (6) (2020)
Yadong Zhang, Zhewen Zhang, Hao Zhang, Yongbing Zhao, Zaichao Zhang, Jing-Fa Xiao
PADS Arsenal: a database of prokaryotic defense systems related genes. Nucleic Acids Res. 48 (Database-Issue) (2020)
Xufei Teng, Qianpeng Li, Zhao Li, Yuansheng Zhang, Guangyi Niu, Jing-Fa Xiao, Jun Yu, Zhang Zhang, Shuhui Song
Compositional Variability and Mutation Spectra of Monophyletic SARS-CoV-2 Clades. Genom. Proteom. Bioinform. 18 (6) (2020)
Yongbing Zhao, Jinyue Wang, Fang Liang, Yanxia Liu, Qi Wang, Hao Zhang, Meiye Jiang, Zhewen Zhang, Wenming Zhao, Yiming Bao, Zhang Zhang, Jiayan Wu, Yan W. Asmann, Rujiao Li, Jing-Fa Xiao
NucMap: a database of genome-wide nucleosome positioning map across species. Nucleic Acids Res. 47 (Database-Issue) (2019)
Bixia Tang, Qing Zhou, Lili Dong, Wulue Li, Xiangquan Zhang, Li Lan, Shuang Zhai, Jing-Fa Xiao, Zhang Zhang, Yiming Bao, Ya-Ping Zhang, Guo-Dong Wang, Wenming Zhao
iDog: an integrated resource for domestic dogs and wild canids. Nucleic Acids Res. 47 (Database-Issue) (2019)
Jian Sang, Zhennan Wang, Man Li, Jiabao Cao, Guangyi Niu, Lin Xia, Dong Zou, Fan Wang, Xingjian Xu, Xiaojiao Han, Jinqi Fan, Ye Yang, Wanzhu Zuo, Yang Zhang, Wenming Zhao, Yiming Bao, Jing-Fa Xiao, Songnian Hu, Lili Hao, Zhang Zhang
ICG: a wiki-driven knowledgebase of internal control genes for RT-qPCR normalization. Nucleic Acids Res. 46 (Database-Issue) (2018)
Shuhui Song, Dongmei Tian, Cuiping Li, Bixia Tang, Lili Dong, Jing-Fa Xiao, Yiming Bao, Wenming Zhao, Hang He, Zhang Zhang
Genome Variation Map: a data repository of genome variations in BIG Data Center. Nucleic Acids Res. 46 (Database-Issue) (2018)
Rujiao Li, Fang Liang, Mengwei Li, Dong Zou, Shixiang Sun, Yongbing Zhao, Wenming Zhao, Yiming Bao, Jing-Fa Xiao, Zhang Zhang
MethBank 3.0: a database of DNA methylomes across a variety of species. Nucleic Acids Res. 46 (Database-Issue) (2018)
Yanqing Wang, Fuhai Song, Junwei Zhu, Sisi Zhang, Yadong Yang, Tingting Chen, Bixia Tang, Lili Dong, Nan Ding, Qian Zhang, Zhouxian Bai, Xunong Dong, Huanxin Chen, Mingyuan Sun, Shuang Zhai, Yubin Sun, Lei Yu, Li Lan, Jing-Fa Xiao, Xiangdong Fang, Hongxing Lei
. Genom. Proteom. Bioinform. 15 (1) (2017)
Xin Sheng, Jiayan Wu, Qianqian Sun, Xue Li, Feng Xian, Manman Sun, Wan Fang, Meili Chen, Jun Yu, Jing-Fa Xiao
MTD: a mammalian transcriptomic database to explore gene expression and regulation. Briefings Bioinform. 18 (1) (2017)
Fang Liang, Lili Hao, Jinyue Wang, Shuo Shi, Jing-Fa Xiao, Rujiao Li
BS-RNA: An efficient mapping and annotation tool for RNA bisulfite sequencing data. Comput. Biol. Chem. 65 (2016)
Yu Xue, Eric-Wubbo Lameijer, Kai Ye, Kunlin Zhang, Suhua Chang, Xiaoyue Wang, Jianmin Wu, Ge Gao, Fangqing Zhao, Jian Li, Chunsheng Han, Shuhua Xu, Jing-Fa Xiao, Xuerui Yang, Xiaomin Ying, Xuegong Zhang, Wei-Hua Chen, Yun Liu, Zhang Zhang, Kun Huang, Jun Yu
Precision Medicine: What Challenges Are We Facing? Genom. Proteom. Bioinform. 14 (5) (2016)
Jing-Fa Xiao, Zhewen Zhang, Jiayan Wu, Jun Yu
A Brief Review of Software Tools for Pangenomics. Genom. Proteom. Bioinform. 13 (1) (2015)
Zhang Zhang, Jian Sang, Lina Ma, Gang Wu, Hao Wu, Dawei Huang, Dong Zou, Siqi Liu, Ang Li, Lili Hao, Ming Tian, Chao Xu, Xumin Wang, Jiayan Wu, Jing-Fa Xiao, Lin Dai, Ling-Ling Chen, Songnian Hu, Jun Yu
RiceWiki: a wiki-based database for community curation of rice genes. Nucleic Acids Res. 42 (Database-Issue) (2014)
Fu-Qiang Wang, Jun Zhong, Ying Zhao, Jing-Fa Xiao, Jing Liu, Meng Dai, Guizhen Zheng, Li Zhang, Jun Yu, Jiayan Wu, Baoling Duan
Genome sequencing of high-penicillin producing industrial strain of Penicillium chrysogenum. BMC Genom. 15 (S-1) (2014)
Jiayan Wu, Jing-Fa Xiao, Zhang Zhang, Xumin Wang, Songnian Hu, Jun Yu
Ribogenomics: the Science and Knowledge of RNA. Genom. Proteom. Bioinform. 12 (2) (2014)
Yongbing Zhao, Xinmiao Jia, Junhui Yang, Yunchao Ling, Zhang Zhang, Jun Yu, Jiayan Wu, Jing-Fa Xiao
PanGP: A tool for quickly analyzing bacterial pan-genome profile. Bioinform. 30 (9) (2014)
Lin Dai, Ming Tian, Jiayan Wu, Jing-Fa Xiao, Xumin Wang, Jeffrey P. Townsend, Zhang Zhang
AuthorReward: increasing community curation in biological knowledge wikis through automated authorship quantification. Bioinform. 29 (14) (2013)
Yongbing Zhao, Jiayan Wu, Junhui Yang, Shixiang Sun, Jing-Fa Xiao, Jun Yu
PGAP: pan-genomes analysis pipeline. Bioinform. 28 (3) (2012)
Jingde Bu, Jiayan Wu, Meili Chen, Jing-Fa Xiao, Jun Yu, Xuebin Chi, Zhong Jin
BAsplice: Bi-direction alignment for detecting splice junctions. ISB (2012)
Yongbing Zhao, Jing-Fa Xiao
Homology modeling and molecular dynamics simulation studies of human type 1 3beta-hydroxysteroid dehydrogenase: Toward the understanding of cofactor specificity. J. Comput. Chem. 32 (1) (2011)
Jing-Fa Xiao, Jun Yu
A Scenario on the Stepwise Evolution of the Genetic Code. Genom. Proteom. Bioinform. 5 (3-4) (2007)
Jing-Fa Xiao, Ze-Sheng Li, Miao Sun, Yuan Zhang, Chia-Chung Sun
Homology modeling and molecular dynamics study of GSK3/SHAGGY-like kinase. Comput. Biol. Chem. 28 (3) (2004)
Li Sheng, Ze-Sheng Li, Jing-Yao Liu, Jing-Fa Xiao, Chia-Chung Sun
Theoretical study on the rate constants for the C2H5 + HBr C2H6 + Br reaction. J. Comput. Chem. 25 (3) (2004)
Li Sheng, Ze-Sheng Li, Jing-Yao Liu, Jing-Fa Xiao, Chia-Chung Sun
Ab initio direct dynamics studies on the reaction of H atom with CH3CH2Cl. J. Comput. Chem. 25 (1) (2004)
Jing-Fa Xiao, Ze-Sheng Li, Jing-Yao Liu, Li Sheng, Chia-Chung Sun
DFT and Ab initio direct dynamics studies on the hydrogen abstraction reactions of chlorine atoms with CH4-nFn (n = 1-3). J. Comput. Chem. 23 (15) (2002)
Yang Wu, Yi-Hong Ding, Jing-Fa Xiao, Ze-Sheng Li, Xu-Ri Huang, Chia-Chung Sun
Direct ab initio dynamics study on the rate constants and kinetic isotope effect for the reactions of H atoms with GeDn(CH3)4-n (n = 1-4). J. Comput. Chem. 23 (14) (2002)