Zhang Zhang

According to our database, Zhang Zhang authored at least 69 papers between 2006 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

McAN: a novel computational algorithm and platform for constructing and visualizing haplotype networks.

Lun Li, Bo Xu, Dongmei Tian, Anke Wang, Junwei Zhu, Cuiping Li, Na Li, Wei Zhao, Leisheng Shi, Yongbiao Xue, Zhang Zhang, Yiming Bao, Wenming Zhao, Shuhui Song

Briefings Bioinform., May, 2023

MethBank 4.0: an updated database of DNA methylation across a variety of species.

Mochen Zhang, Wenting Zong, Dong Zou, Guoliang Wang, Wei Zhao, Fei Yang, Song Wu, Xinran Zhang, Xutong Guo, Yingke Ma, Zhuang Xiong, Zhang Zhang, Yiming Bao, Rujiao Li

Nucleic Acids Res., January, 2023

Brain Catalog: a comprehensive resource for the genetic landscape of brain-related traits.

Siyu Pan, Hongen Kang, Xinxuan Liu, Shiqi Lin, Na Yuan, Zhang Zhang, Yiming Bao, Peilin Jia

Nucleic Acids Res., January, 2023

GWAS Atlas: an updated knowledgebase integrating more curated associations in plants and animals.

Xiaonan Liu, Dongmei Tian, Cuiping Li, Bixia Tang, Zhonghuang Wang, Rongqin Zhang, Yitong Pan, Yi Wang, Dong Zou, Zhang Zhang, Shuhui Song

Nucleic Acids Res., January, 2023

LncBook 2.0: integrating human long non-coding RNAs with multi-omics annotations.

Zhao Li, Lin Liu, Changrui Feng, Yuxin Qin, Jing-Fa Xiao, Zhang Zhang, Lina Ma

Nucleic Acids Res., January, 2023

Cell Taxonomy: a curated repository of cell types with multifaceted characterization.

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

Nucleic Acids Res., January, 2023

HGD: an integrated homologous gene database across multiple species.

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

Nucleic Acids Res., January, 2023

2022

Gene Expression Nebulas (GEN): a comprehensive data portal integrating transcriptomic profiles across multiple species at both bulk and single-cell levels.

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

Nucleic Acids Res., 2022

Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 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

Nucleic Acids Res., 2022

EWAS Open Platform: integrated data, knowledge and toolkit for epigenome-wide association study.

Zhuang Xiong, Fei Yang, Mengwei Li, Yingke Ma, Wei Zhao, Guoliang Wang, Zhaohua Li, Xinchang Zheng, Dong Zou, Wenting Zong, Hongen Kang, Yaokai Jia, Rujiao Li, Zhang Zhang, Yiming Bao

Nucleic Acids Res., 2022

BrainBase: a curated knowledgebase for brain diseases.

Lin Liu, Yang Zhang, Guangyi Niu, Qianpeng Li, Zhao Li, Tongtong Zhu, Changrui Feng, Xiaonan Liu, Yuansheng Zhang, Tianyi Xu, Ruru Chen, Xufei Teng, Rongqin Zhang, Dong Zou, Lina Ma, Zhang Zhang

Nucleic Acids Res., 2022

LncRNAWiki 2.0: a knowledgebase of human long non-coding RNAs with enhanced curation model and database system.

Lin Liu, Zhao Li, Chang Liu, Dong Zou, Qianpeng Li, Changrui Feng, Wei Jing, Sicheng Luo, Zhang Zhang, Lina Ma

Nucleic Acids Res., 2022

CompoDynamics: a comprehensive database for characterizing sequence composition dynamics.

Shuai Jiang, Qiang Du, Changrui Feng, Lina Ma, Zhang Zhang

Nucleic Acids Res., 2022

LIRBase: a comprehensive database of long inverted repeats in eukaryotic genomes.

Lihua Jia, Yang Li, Fangfang Huang, Yingru Jiang, Haoran Li, Zhizhan Wang, Tiantian Chen, Jiaming Li, Zhang Zhang, Wen Yao

Nucleic Acids Res., 2022

KaKs_Calculator 3.0: Calculating Selective Pressure on Coding and Non-coding Sequences.

Zhang Zhang

Genom. Proteom. Bioinform., 2022

2021

Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 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, 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

Nucleic Acids Res., 2021

RNAcentral 2021: secondary structure integration, improved sequence search and new member databases.

Blake A. Sweeney, Anton I. Petrov, Carlos Eduardo Ribas, Robert D. Finn, Alex Bateman, Maciej Szymanski, Wojciech M. Karlowski, Stefan E. Seemann, Jan Gorodkin, Jamie J. Cannone, Robin Ray Gutell, Simon Kay, Steven J. Marygold, Gilberto dos Santos, Adam Frankish, Jonathan M. Mudge, Ruth Barshir, Simon Fishilevich, Patricia P. Chan, Todd M. Lowe, Ruth L. Seal, Elspeth A. Bruford, Simona Panni, Pablo Porras, Dimitra Karagkouni, Artemis G. Hatzigeorgiou, Lina Ma, Zhang Zhang, Pieter-Jan Volders, Pieter Mestdagh, Sam Griffiths-Jones, Bastian Fromm, Kevin J. Peterson, Ioanna Kalvari, Eric P. Nawrocki, Anton S. Petrov, Shuai Weng, Philia Bouchard-Bourelle, Michelle S. Scott, Lauren M. Lui, David Hoksza, Ruth C. Lovering, Barbara Kramarz, Prita Mani, Sridhar Ramachandran, Zasha Weinberg

Nucleic Acids Res., 2021

Genome Variation Map: a worldwide collection of genome variations across multiple species.

Cuiping Li, Dongmei Tian, Bixia Tang, Xiaonan Liu, Xufei Teng, Wenming Zhao, Zhang Zhang, Shuhui Song

Nucleic Acids Res., 2021

LncExpDB: an expression database of human long non-coding RNAs.

Zhao Li, Lin Liu, Shuai Jiang, Qianpeng Li, Changrui Feng, Qiang Du, Dong Zou, Jing-Fa Xiao, Zhang Zhang, Lina Ma

Nucleic Acids Res., 2021

Genome Warehouse: A Public Repository Housing Genome-scale Data.

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

Genom. Proteom. Bioinform., 2021

The Genome Sequence Archive Family: Toward Explosive Data Growth and Diverse Data Types.

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

Genom. Proteom. Bioinform., 2021

2020

EWAS Data Hub: a resource of DNA methylation array data and metadata.

Zhuang Xiong, Mengwei Li, Fei Yang, Yingke Ma, Jian Sang, Rujiao Li, Zhaohua Li, Zhang Zhang, Yiming Bao

Nucleic Acids Res., 2020

GWAS Atlas: a curated resource of genome-wide variant-trait associations in plants and animals.

Dongmei Tian, Pei Wang, Bixia Tang, Xufei Teng, Cuiping Li, Xiaonan Liu, Dong Zou, Shuhui Song, Zhang Zhang

Nucleic Acids Res., 2020

LSD 3.0: a comprehensive resource for the leaf senescence research community.

Zhonghai Li, Yang Zhang, Dong Zou, Yi Zhao, Hou-Ling Wang, Yi Zhang, Xinli Xia, Jingchu Luo, Hongwei Guo, Zhang Zhang

Nucleic Acids Res., 2020

SR4R: An Integrative SNP Resource for Genomic Breeding and Population Research in Rice.

Jun Yan, Dong Zou, Chen Li, Zhang Zhang, Shuhui Song, Xiangfeng Wang

Genom. Proteom. Bioinform., 2020

Compositional Variability and Mutation Spectra of Monophyletic SARS-CoV-2 Clades.

Xufei Teng, Qianpeng Li, Zhao Li, Yuansheng Zhang, Guangyi Niu, Jing-Fa Xiao, Jun Yu, Zhang Zhang, Shuhui Song

Genom. Proteom. Bioinform., 2020

The Global Landscape of SARS-CoV-2 Genomes, Variants, and Haplotypes in 2019nCoVR.

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

Genom. Proteom. Bioinform., 2020

IC4R-2.0: Rice Genome Reannotation Using Massive RNA-seq Data.

Jian Sang, Dong Zou, Zhennan Wang, Fan Wang, Yuansheng Zhang, Lin Xia, Zhaohua Li, Lina Ma, Mengwei Li, Bingxiang Xu, Xiaonan Liu, Shuangyang Wu, Lin Liu, Guangyi Niu, Man Li, Yingfeng Luo, Songnian Hu, Lili Hao, Zhang Zhang

Genom. Proteom. Bioinform., 2020

The Elements of Data Sharing.

Zhang Zhang, Shuhui Song, Jun Yu, Wenming Zhao, Jing-Fa Xiao, Yiming Bao

Genom. Proteom. Bioinform., 2020

2019

NucMap: a database of genome-wide nucleosome positioning map across species.

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

Nucleic Acids Res., 2019

iDog: an integrated resource for domestic dogs and wild canids.

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

Nucleic Acids Res., 2019

Editome Disease Knowledgebase (EDK): a curated knowledgebase of editome-disease associations in human.

Guangyi Niu, Dong Zou, Mengwei Li, Yuansheng Zhang, Jian Sang, Lin Xia, Man Li, Lin Liu, Jiabao Cao, Yang Zhang, Pei Wang, Songnian Hu, Lili Hao, Zhang Zhang

Nucleic Acids Res., 2019

LncBook: a curated knowledgebase of human long non-coding RNAs.

Lina Ma, Jiabao Cao, Lin Liu, Qiang Du, Zhao Li, Dong Zou, Vladimir B. Bajic, Zhang Zhang

Nucleic Acids Res., 2019

EWAS Atlas: a curated knowledgebase of epigenome-wide association studies.

Mengwei Li, Dong Zou, Zhaohua Li, Ran Gao, Jian Sang, Yuansheng Zhang, Rujiao Li, Lin Xia, Tao Zhang, Guangyi Niu, Yiming Bao, Zhang Zhang

Nucleic Acids Res., 2019

Plant editosome database: a curated database of RNA editosome in plants.

Man Li, Lin Xia, Yuansheng Zhang, Guangyi Niu, Mengwei Li, Pei Wang, Yang Zhang, Jian Sang, Dong Zou, Songnian Hu, Lili Hao, Zhang Zhang

Nucleic Acids Res., 2019

In Memory of Vladimir B. Bajic (1952-2019).

Zhang Zhang, Jun Yu, Frank Eisenhaber, Xin Gao, Takashi Gojobori

Genom. Proteom. Bioinform., 2019

Characterization and identification of long non-coding RNAs based on feature relationship.

Guangyu Wang, Hongyan Yin, Boyang Li, Chunlei Yu, Fan Wang, Xingjian Xu, Jiabao Cao, Yiming Bao, Liguo Wang, Amir Ali Abbasi, Vladimir B. Bajic, Lina Ma, Zhang Zhang

Bioinform., 2019

Computational determination of gene age and characterization of evolutionary dynamics in human.

Hongyan Yin, Mengwei Li, Lin Xia, Chaozu He, Zhang Zhang

Briefings Bioinform., 2019

2018

Genome Variation Map: a data repository of genome variations in BIG Data Center.

Shuhui Song, Dongmei Tian, Cuiping Li, Bixia Tang, Lili Dong, Jing-Fa Xiao, Yiming Bao, Wenming Zhao, Hang He, Zhang Zhang

Nucleic Acids Res., 2018

ICG: a wiki-driven knowledgebase of internal control genes for RT-qPCR normalization.

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

Nucleic Acids Res., 2018

MethBank 3.0: a database of DNA methylomes across a variety of species.

Rujiao Li, Fang Liang, Mengwei Li, Dong Zou, Shixiang Sun, Yongbing Zhao, Wenming Zhao, Yiming Bao, Jing-Fa Xiao, Zhang Zhang

Nucleic Acids Res., 2018

Bioinformatics Commons: The Cornerstone of Life and Health Sciences.

Zhang Zhang, Yu Xue, Fangqing Zhao

Genom. Proteom. Bioinform., 2018

Rice Genomics: over the Past Two Decades and into the Future.

Shuhui Song, Dongmei Tian, Zhang Zhang, Songnian Hu, Jun Yu

Genom. Proteom. Bioinform., 2018

2017

CloudPhylo: a fast and scalable tool for phylogeny reconstruction.

Xingjian Xu, Zhaohua Ji, Zhang Zhang

Bioinform., 2017

2016

Precision Medicine: What Challenges Are We Facing?

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

Genom. Proteom. Bioinform., 2016

2015

MethBank: a database integrating next-generation sequencing single-base-resolution DNA methylation programming data.

Dong Zou, Shixiang Sun, Rujiao Li, Jiang Liu, Jing Zhang, Zhang Zhang

Nucleic Acids Res., 2015

LncRNAWiki: harnessing community knowledge in collaborative curation of human long non-coding RNAs.

Lina Ma, Ang Li, Dong Zou, Xingjian Xu, Lin Xia, Jun Yu, Vladimir B. Bajic, Zhang Zhang

Nucleic Acids Res., 2015

DoGSD: the dog and wolf genome SNP database.

Bing Bai, Wen-Ming Zhao, Bixia Tang, Yanqing Wang, Lu Wang, Zhang Zhang, He-Chuan Yang, Yan-Hu Liu, Jun-Wei Zhu, David M. Irwin, Guo-Dong Wang, Ya-Ping Zhang

Nucleic Acids Res., 2015

Biological Databases for Human Research.

Dong Zou, Lina Ma, Jun Yu, Zhang Zhang

Genom. Proteom. Bioinform., 2015

2014

RiceWiki: a wiki-based database for community curation of rice genes.

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

Nucleic Acids Res., 2014

Bringing Biocuration to China.

Zhang Zhang, Weimin Zhu, Jingchu Luo

Genom. Proteom. Bioinform., 2014

Ribogenomics: the Science and Knowledge of RNA.

Jiayan Wu, Jing-Fa Xiao, Zhang Zhang, Xumin Wang, Songnian Hu, Jun Yu

Genom. Proteom. Bioinform., 2014

PanGP: A tool for quickly analyzing bacterial pan-genome profile.

Yongbing Zhao, Xinmiao Jia, Junhui Yang, Yunchao Ling, Zhang Zhang, Jun Yu, Jiayan Wu, Jing-Fa Xiao

Bioinform., 2014

2013

Does the Genetic Code Have A Eukaryotic Origin?

Zhang Zhang, Jun Yu

Genom. Proteom. Bioinform., 2013

AuthorReward: increasing community curation in biological knowledge wikis through automated authorship quantification.

Lin Dai, Ming Tian, Jiayan Wu, Jing-Fa Xiao, Xumin Wang, Jeffrey P. Townsend, Zhang Zhang

Bioinform., 2013

2012

The Pendulum Model for Genome Compositional Dynamics: from the Four Nucleotides to the Twenty Amino Acids.

Zhang Zhang, Jun Yu

Genom. Proteom. Bioinform., 2012

Strand-biased Gene Distribution in Bacteria Is Related to both Horizontal Gene Transfer and Strand-biased Nucleotide Composition.

Hao Wu, Hongzhu Qu, Ning Wan, Zhang Zhang, Songnian Hu, Jun Yu

Genom. Proteom. Bioinform., 2012

Comparative Analyses of H3K4 and H3K27 Trimethylations Between the Mouse Cerebrum and Testis.

Peng Cui, Wanfei Liu, Yuhui Zhao, Qiang Lin, Daoyong Zhang, Feng Ding, Chengqi Xin, Zhang Zhang, Shuhui Song, Fanglin Sun, Jun Yu, Songnian Hu

Genom. Proteom. Bioinform., 2012

Distinct Contributions of Replication and Transcription to Mutation Rate Variation of Human Genomes.

Peng Cui, Feng Ding, Qiang Lin, Lingfang Zhang, Ang Li, Zhang Zhang, Songnian Hu, Jun Yu

Genom. Proteom. Bioinform., 2012

Codon Deviation Coefficient: a novel measure for estimating codon usage bias and its statistical significance.

Zhang Zhang, Jun Li, Peng Cui, Feng Ding, Ang Li, Jeffrey P. Townsend, Jun Yu

BMC Bioinform., 2012

2011

On the Organizational Dynamics of the Genetic Code.

Zhang Zhang, Jun Yu

Genom. Proteom. Bioinform., 2011

2010

KaKs_Calculator 2.0: A Toolkit Incorporating Gamma-Series Methods and Sliding Window Strategies.

Dapeng Wang, Yubin Zhang, Zhang Zhang, Jiang Zhu, Jun Yu

Genom. Proteom. Bioinform., 2010

LOX: inferring Level Of eXpression from diverse methods of census sequencing.

Zhang Zhang, Francesc López-Giráldez, Jeffrey P. Townsend

Bioinform., 2010

2009

Maximum-Likelihood Model Averaging To Profile Clustering of Site Types across Discrete Linear Sequences.

Zhang Zhang, Jeffrey P. Townsend

PLoS Comput. Biol., 2009

Bringing Web 2.0 to bioinformatics.

Zhang Zhang, Kei-Hoi Cheung, Jeffrey P. Townsend

Briefings Bioinform., 2009

2007

FGF: A web tool for Fishing Gene Family in a whole genome database.

Hongkun Zheng, Junjie Shi, Xiaodong Fang, Yuan Li, Søren Vang, Wei Fan, Junyi Wang, Zhang Zhang, Wen Wang, Karsten Kristiansen, Jun Wang

Nucleic Acids Res., 2007

2006

TreeFam: a curated database of phylogenetic trees of animal gene families.

Heng Li, Avril Coghlan, Jue Ruan, Lachlan James M. Coin, Jean-Karim Hériché, Lara Osmotherly, Ruiqiang Li, Tao Liu, Zhang Zhang, Lars Bolund, Gane Ka-Shu Wong, Wei-Mou Zheng, Paramvir Dehal, Jun Wang, Richard Durbin

Nucleic Acids Res., 2006

Evaluation of Six Methods for Estimating Synonymous and Nonsynonymous Substitution Rates.

Zhang Zhang, Jun Yu

Genom. Proteom. Bioinform., 2006

KaKs_Calculator: Calculating Ka and Ks Through Model Selection and Model Averaging.

Zhang Zhang, Jun Li, Xiao-Qian Zhao, Jun Wang, Gane Ka-Shu Wong, Jun Yu

Genom. Proteom. Bioinform., 2006