ChickVD: a sequence variation database for the chicken genome. - Jing Wang 003; Ximiao He; Jue Ruan; Mingtao Dai; Jie Chen; Yong Zhang 036; Yafeng Hu; Chen Ye; Shengting Li; Lijuan Cong; Lin Fang; Bin Liu; et al. (Nucleic Acids Res., 2005)

SilkDB: a knowledgebase for silkworm biology and genomics. - Jing Wang 003; Qingyou Xia; Ximiao He; Mingtao Dai; Jue Ruan; Jie Chen; Guo Yu; Haifeng Yuan; Yafeng Hu; Ruiqiang Li; Tao Feng; Chen Ye; et al. (Nucleic Acids Res., 2005)

TreeFam: a curated database of phylogenetic trees of animal gene families. - Heng Li 002; Avril Coghlan; Jue Ruan; Lachlan James M. Coin; Jean-Karim Hériché; Lara Osmotherly; Ruiqiang Li; Tao Liu; Zhang Zhang 002; Lars Bolund; Gane Ka-Shu Wong; Wei-Mou Zheng; et al. (Nucleic Acids Res., 2006)

PigGIS: Pig Genomic Informatics System. - Jue Ruan; Yiran Guo; Heng Li 002; Yafeng Hu; Fei Song; Xin Huang; Karsten Kristiansen; Lars Bolund; Jun Wang 004 (Nucleic Acids Res., 2007)

TreeFam: 2008 Update. - Jue Ruan; Heng Li 002; Zhongzhong Chen; Avril Coghlan; Lachlan James M. Coin; Yiran Guo; Jean-Karim Hériché; Yafeng Hu; Karsten Kristiansen; Ruiqiang Li; Tao Liu; Alan Moses; et al. (Nucleic Acids Res., 2008)

The Sequence Alignment/Map format and SAMtools. - Heng Li 002; Bob Handsaker; Alec Wysoker; Tim Fennell; Jue Ruan; Nils Homer; Gabor T. Marth; Gonçalo R. Abecasis; Richard Durbin (Bioinform., 2009)

Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads. - Zechen Chong; Jue Ruan; Chung-I Wu (Bioinform., 2012)

Determination of genomic copy number alteration emphasizing a restriction site-based strategy of genome re-sequencing. - Caihong Zheng; Xuexia Miao; Yanen Li; Ying Huang; Jue Ruan; Xi Ma; Li Wang; Chung-I Wu; Jun Cai (Bioinform., 2013)

A Chromosome-level Genome Assembly of Wild Castor Provides New Insights into its Adaptive Evolution in Tropical Desert. - Jianjun Lu; Cheng Pan; Wei Fan; Wanfei Liu; Huayan Zhao; Donghai Li; Sen Wang; Lianlian Hu; Bing He; Kun Qian; Rui Qin; Jue Ruan; et al. (Genom. Proteom. Bioinform., 2022)

En Route to Completion: What Is An Ideal Reference Genome? - Weihua Pan; Jue Ruan (Genom. Proteom. Bioinform., 2022)

The First High-quality Reference Genome of Sika Deer Provides Insights into High-tannin Adaptation. - Xiumei Xing; Cheng Ai; Tianjiao Wang; Yang Li; Huitao Liu; Pengfei Hu; Guiwu Wang; Huamiao Liu; Hongliang Wang; Ranran Zhang; Junjun Zheng; Xiaobo Wang; et al. (Genom. Proteom. Bioinform., 2023)

BSAlign: A Library for Nucleotide Sequence Alignment. - Haojing Shao; Jue Ruan (Genom. Proteom. Bioinform., 2024)