Jing-Fa Xiao

46 papers Journal 45Unranked 1
YearRankTypeTitle / Venue / Authors
2025 J jnl
Lineage-associated Human Divergently-paired Genes Exhibit Structural and Regulatory Characteristics.
Genom. Proteom. Bioinform.
Guangya Duan, Sisi Zhang, Bixia Tang, Jing-Fa Xiao, Zhang Zhang, Peng Cui, Jun Yu, Wenming Zhao
2025 J jnl
The GSA Family in 2025: A Broadened Sharing Platform for Multi-omics and Multimodal Data.
Genom. Proteom. Bioinform.
Sisi Zhang, Xu Chen, Enhui Jin, Anke Wang, Tingting Chen, Xiaolong Zhang, Junwei Zhu, Lili Dong, Yanling Sun, Caixia Yu, Yubo Zhou, Zhuojing Fan, Huanxin Chen, Shuang Zhai, Yubin Sun, Qiancheng Chen, Jing-Fa Xiao, Shuhui Song, Zhang Zhang, Yiming Bao, Yanqing Wang, Wenming Zhao
2024 J jnl
GenBase: A Nucleotide Sequence Database.
Genom. Proteom. Bioinform.
Congfan Bu, Xinchang Zheng, Xuetong Zhao, Tianyi Xu, Xue Bai, Yaokai Jia, Meili Chen, Lili Hao, Jing-Fa Xiao, Zhang Zhang, Wenming Zhao, Bixia Tang, Yiming Bao
2023 J jnl
Cell Taxonomy: a curated repository of cell types with multifaceted characterization.
Nucleic Acids Res.
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
2023 J jnl
Database Commons: A Catalog of Worldwide Biological Databases.
Genom. Proteom. Bioinform.
Lina Ma, Dong Zou, Lin Liu, Huma Shireen, Amir Ali Abbasi, Alex Bateman, Jing-Fa Xiao, Wenming Zhao, Yiming Bao, Zhang Zhang
2023 J jnl
HGD: an integrated homologous gene database across multiple species.
Nucleic Acids Res.
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
2023 J jnl
LncBook 2.0: integrating human long non-coding RNAs with multi-omics annotations.
Nucleic Acids Res.
Zhao Li, Lin Liu, Changrui Feng, Yuxin Qin, Jing-Fa Xiao, Zhang Zhang, Lina Ma
2023 J jnl
ProPan: a comprehensive database for profiling prokaryotic pan-genome dynamics.
Nucleic Acids Res.
Yadong Zhang, Hao Zhang, Zaichao Zhang, Qiheng Qian, Zhewen Zhang, Jing-Fa Xiao
2023 J jnl
TWAS Atlas: a curated knowledgebase of transcriptome-wide association studies.
Nucleic Acids Res.
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
2022 J jnl
CancerSCEM: a database of single-cell expression map across various human cancers.
Nucleic Acids Res.
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
2022 J jnl
Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels.
Nucleic Acids Res.
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
2022 J jnl
TSomVar: a tumor-only somatic and germline variant identification method with random forest.
Briefings Bioinform.
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
2021 J jnl
Applications and challenges of high performance computing in genomics.
CCF Trans. High Perform. Comput.
Meiye Jiang, Congfan Bu, Jingyao Zeng, Zhenglin Du, Jing-Fa Xiao
2021 J jnl
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021.
Nucleic Acids Res.
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, Guanghui 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 Ali 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
2021 J jnl
Genome Warehouse: A Public Repository Housing Genome-scale Data.
Genom. Proteom. Bioinform.
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
2021 J jnl
LncExpDB: an expression database of human long non-coding RNAs.
Nucleic Acids Res.
Zhao Li, Lin Liu, Shuai Jiang, Qianpeng Li, Changrui Feng, Qiang Du, Dong Zou, Jing-Fa Xiao, Zhang Zhang, Lina Ma
2021 J jnl
RefRGim: an intelligent reference panel reconstruction method for genotype imputation with convolutional neural networks.
Briefings Bioinform.
Shuo Shi, Qiheng Qian, Shuhuan Yu, Qi Wang, Jinyue Wang, Jingyao Zeng, Zhenglin Du, Jing-Fa Xiao
2021 J jnl
The Genome Sequence Archive Family: Toward Explosive Data Growth and Diverse Data Types.
Genom. Proteom. Bioinform.
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
2020 J jnl
Compositional Variability and Mutation Spectra of Monophyletic SARS-CoV-2 Clades.
Genom. Proteom. Bioinform.
Xufei Teng, Qianpeng Li, Zhao Li, Yuansheng Zhang, Guangyi Niu, Jing-Fa Xiao, Jun Yu, Zhang Zhang, Shuhui Song
2020 J jnl
PADS Arsenal: a database of prokaryotic defense systems related genes.
Nucleic Acids Res.
Yadong Zhang, Zhewen Zhang, Hao Zhang, Yongbing Zhao, Zaichao Zhang, Jing-Fa Xiao
2020 J jnl
The Elements of Data Sharing.
Genom. Proteom. Bioinform.
Zhang Zhang, Shuhui Song, Jun Yu, Wenming Zhao, Jing-Fa Xiao, Yiming Bao
2020 J jnl
The Global Landscape of SARS-CoV-2 Genomes, Variants, and Haplotypes in 2019nCoVR.
Genom. Proteom. Bioinform.
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
2019 J jnl
NucMap: a database of genome-wide nucleosome positioning map across species.
Nucleic Acids Res.
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
2019 J jnl
iDog: an integrated resource for domestic dogs and wild canids.
Nucleic Acids Res.
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
2018 J jnl
Genome Variation Map: a data repository of genome variations in BIG Data Center.
Nucleic Acids Res.
Shuhui Song, Dongmei Tian, Cuiping Li, Bixia Tang, Lili Dong, Jing-Fa Xiao, Yiming Bao, Wenming Zhao, Hang He, Zhang Zhang
2018 J jnl
ICG: a wiki-driven knowledgebase of internal control genes for RT-qPCR normalization.
Nucleic Acids Res.
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
2018 J jnl
MethBank 3.0: a database of DNA methylomes across a variety of species.
Nucleic Acids Res.
Rujiao Li, Fang Liang, Mengwei Li, Dong Zou, Shixiang Sun, Yongbing Zhao, Wenming Zhao, Yiming Bao, Jing-Fa Xiao, Zhang Zhang
2017 J jnl
GSA: Genome Sequence Archive
Genom. Proteom. Bioinform.
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
2017 J jnl
MTD: a mammalian transcriptomic database to explore gene expression and regulation.
Briefings Bioinform.
Xin Sheng, Jiayan Wu, Qianqian Sun, Xue Li, Feng Xian, Manman Sun, Wan Fang, Meili Chen, Jun Yu, Jing-Fa Xiao
2016 J jnl
BS-RNA: An efficient mapping and annotation tool for RNA bisulfite sequencing data.
Comput. Biol. Chem.
Fang Liang, Lili Hao, Jinyue Wang, Shuo Shi, Jing-Fa Xiao, Rujiao Li
2016 J jnl
Precision Medicine: What Challenges Are We Facing?
Genom. Proteom. Bioinform.
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
2015 J jnl
A Brief Review of Software Tools for Pangenomics.
Genom. Proteom. Bioinform.
Jing-Fa Xiao, Zhewen Zhang, Jiayan Wu, Jun Yu
2014 J jnl
Genome sequencing of high-penicillin producing industrial strain of Penicillium chrysogenum.
BMC Genom.
Fu-Qiang Wang, Jun Zhong, Ying Zhao, Jing-Fa Xiao, Jing Liu, Meng Dai, Guizhen Zheng, Li Zhang, Jun Yu, Jiayan Wu, Baoling Duan
2014 J jnl
PanGP: A tool for quickly analyzing bacterial pan-genome profile.
Bioinform.
Yongbing Zhao, Xinmiao Jia, Junhui Yang, Yunchao Ling, Zhang Zhang, Jun Yu, Jiayan Wu, Jing-Fa Xiao
2014 J jnl
Ribogenomics: the Science and Knowledge of RNA.
Genom. Proteom. Bioinform.
Jiayan Wu, Jing-Fa Xiao, Zhang Zhang, Xumin Wang, Songnian Hu, Jun Yu
2014 J jnl
RiceWiki: a wiki-based database for community curation of rice genes.
Nucleic Acids Res.
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
2013 J jnl
AuthorReward: increasing community curation in biological knowledge wikis through automated authorship quantification.
Bioinform.
Lin Dai, Ming Tian, Jiayan Wu, Jing-Fa Xiao, Xumin Wang, Jeffrey P. Townsend, Zhang Zhang
2012 — conf
BAsplice: Bi-direction alignment for detecting splice junctions.
ISB
Jingde Bu, Jiayan Wu, Meili Chen, Jing-Fa Xiao, Jun Yu, Xuebin Chi, Zhong Jin
2012 J jnl
PGAP: pan-genomes analysis pipeline.
Bioinform.
Yongbing Zhao, Jiayan Wu, Junhui Yang, Shixiang Sun, Jing-Fa Xiao, Jun Yu
2011 J jnl
Homology modeling and molecular dynamics simulation studies of human type 1 3beta-hydroxysteroid dehydrogenase: Toward the understanding of cofactor specificity.
J. Comput. Chem.
Yongbing Zhao, Jing-Fa Xiao
2007 J jnl
A Scenario on the Stepwise Evolution of the Genetic Code.
Genom. Proteom. Bioinform.
Jing-Fa Xiao, Jun Yu
2004 J jnl
Ab initio direct dynamics studies on the reaction of H atom with CH3CH2Cl.
J. Comput. Chem.
Li Sheng, Ze-Sheng Li, Jing-yao Liu, Jing-Fa Xiao, Chia-Chung Sun
2004 J jnl
Homology modeling and molecular dynamics study of GSK3/SHAGGY-like kinase.
Comput. Biol. Chem.
Jing-Fa Xiao, Ze-Sheng Li, Miao Sun, Yuan Zhang, Chia-Chung Sun
2004 J jnl
Theoretical study on the rate constants for the C2H5 + HBr C2H6 + Br reaction.
J. Comput. Chem.
Li Sheng, Ze-Sheng Li, Jing-yao Liu, Jing-Fa Xiao, Chia-Chung Sun
2002 J jnl
DFT and Ab initio direct dynamics studies on the hydrogen abstraction reactions of chlorine atoms with CH4-nFn (n = 1-3).
J. Comput. Chem.
Jing-Fa Xiao, Ze-Sheng Li, Jing-yao Liu, Li Sheng, Chia-Chung Sun
2002 J jnl
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.
Yang Wu, Yi-Hong Ding, Jing-Fa Xiao, Ze-Sheng Li, Xu-Ri Huang, Chia-Chung Sun