NONCODE: an integrated knowledge database of non-coding RNAs. - Changning Liu; Baoyan Bai; Geir Skogerbø; Lun Cai; Wei Deng; Yong Zhang 006; Dongbo Bu; Yi Zhao 013; Runsheng Chen (Nucleic Acids Res., 2005)

Research on Key Technologies of Load Balancing for NFS Server with Multiple Network Paths. - Huan Chen 003; Rongfeng Tang; Yi Zhao 013; Jin Xiong; Jie Ma; Ninghui Sun (GCC Workshops, 2006)

NPInter: the noncoding RNAs and protein related biomacromolecules interaction database. - Tao Wu 002; Jie Wang; Changning Liu; Yong Zhang 006; Baochen Shi; Xiaopeng Zhu; Zhihua Zhang; Geir Skogerbø; Lan Chen; Hongchao Lu; Yi Zhao 013; Runsheng Chen (Nucleic Acids Res., 2006)

United-FS: A Logical File System Providing a Single Image of Multiple Physical File Systems on NFS Server. - Huan Chen 003; Yi Zhao 013; Jin Xiong; Jie Ma; Ninghui Sun (IPDPS, 2007)

antiCODE: a natural sense-antisense transcripts database. - Yifei Yin; Yi Zhao 013; Jie Wang; Changning Liu; Shuguang Chen; Runsheng Chen; Haitao Zhao (BMC Bioinform., 2007)

NONCODE v2.0: decoding the non-coding. - Shunmin He; Changning Liu; Geir Skogerbø; Haitao Zhao; Jie Wang; Tao Liu 022; Baoyan Bai; Yi Zhao 013; Runsheng Chen (Nucleic Acids Res., 2008)

Clustered microRNAs' coordination in regulating protein-protein interaction network. - Xiongying Yuan; Changning Liu; Pengcheng Yang; Shunmin He; Qi Liao; Shuli Kang; Yi Zhao 013 (BMC Syst. Biol., 2009)

ncFANs: a web server for functional annotation of long non-coding RNAs. - Qi Liao; Hui Xiao; Dechao Bu; Chaoyong Xie; Ruoyu Miao; Haitao Luo; Guoguang Zhao; Kuntao Yu; Haitao Zhao; Geir Skogerbø; Runsheng Chen; Zhongdao Wu; et al. (Nucleic Acids Res., 2011)

NONCODE v3.0: integrative annotation of long noncoding RNAs. - Dechao Bu; Kuntao Yu; Silong Sun; Chaoyong Xie; Geir Skogerbø; Ruoyu Miao; Hui Xiao; Qi Liao; Haitao Luo; Guoguang Zhao; Haitao Zhao; Zhiyong Liu; et al. (Nucleic Acids Res., 2012)

NONCODEv4: exploring the world of long non-coding RNA genes. - Chaoyong Xie; Jiao Yuan; Hui Li 038; Ming Li; Guoguang Zhao; Dechao Bu; Weimin Zhu; Wei Wu 025; Runsheng Chen; Yi Zhao 013 (Nucleic Acids Res., 2014)

NPInter v2.0: an updated database of ncRNA interactions. - Jiao Yuan; Wei Wu 025; Chaoyong Xie; Guoguang Zhao; Yi Zhao 013; Runsheng Chen (Nucleic Acids Res., 2014)

Dr.VIS v2.0: an updated database of human disease-related viral integration sites in the era of high-throughput deep sequencing. - Xiaobo Yang; Ming Li; Qi Liu; Yabing Zhang; Junyan Qian; Xueshuai Wan; Anqiang Wang; Haohai Zhang; Chengpei Zhu; Xin Lu; Yilei Mao; Xinting Sang; et al. (Nucleic Acids Res., 2015)

NPInter v3.0: an upgraded database of noncoding RNA-associated interactions. - Yajing Hao 001; Wei Wu 025; Hui Li 038; Jiao Yuan; Jianjun Luo 001; Yi Zhao 013; Runsheng Chen (Database J. Biol. Databases Curation, 2016)

NONCODE 2016: an informative and valuable data source of long non-coding RNAs. - Yi Zhao 013; Hui Li 038; Shuangsang Fang; Yue Kang; Wei Wu 025; Yajing Hao 001; Ziyang Li; Dechao Bu; Ninghui Sun; Michael Q. Zhang; Runsheng Chen (Nucleic Acids Res., 2016)

Identification and function annotation of long intervening noncoding RNAs. - Haitao Luo; Dechao Bu; Liang Sun; Shuangsang Fang; Zhiyong Liu; Yi Zhao 013 (Briefings Bioinform., 2017)

dbDEMC 2.0: updated database of differentially expressed miRNAs in human cancers. - Zhen Yang; Liangcai Wu; Anqiang Wang; Wei Tang; Yi Zhao 013; Haitao Zhao; Andrew E. Teschendorff (Nucleic Acids Res., 2017)

NONCODEV5: a comprehensive annotation database for long non-coding RNAs. - Shuangsang Fang; LiLi Zhang 007; Jincheng Guo; Yiwei Niu; Yang Wu; Hui Li 038; Lianhe Zhao; Xiyuan Li; XueYi Teng; XianHui Sun; Liang Sun; Michael Q. Zhang; et al. (Nucleic Acids Res., 2018)

DeepACE: Automated Chromosome Enumeration in Metaphase Cell Images Using Deep Convolutional Neural Networks. - Li Xiao 005; Chunlong Luo; Yufan Luo; Tianqi Yu; Chan Tian; Jie Qiao; Yi Zhao 013 (MICCAI (1), 2019)

Learning from Suspected Target: Bootstrapping Performance for Breast Cancer Detection in Mammography. - Li Xiao 005; Cheng Zhu; Junjun Liu; Chunlong Luo; Peifang Liu; Yi Zhao 013 (MICCAI (6), 2019)

CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition. - Jincheng Guo; Shuangsang Fang; Yang Wu; Jianhua Zhang; Yang Chen; Jing Liu; Bo Wu; Jiarui Wu; Enmin Li; Liyan Xu; Liang Sun; Yi Zhao 013 (Nucleic Acids Res., 2019)

SymMap: an integrative database of traditional Chinese medicine enhanced by symptom mapping. - Yang Wu; Feilong Zhang; Kuo Yang; Shuangsang Fang; Dechao Bu; Hui Li 038; Liang Sun; Hairuo Hu; Kuo Gao; Wei Wang 269; Xuezhong Zhou; Yi Zhao 013; et al. (Nucleic Acids Res., 2019)

PBRnet: Pyramidal Bounding Box Refinement to Improve Object Localization Accuracy. - Li Xiao 005; Yufan Luo; Chunlong Luo; Lianhe Zhao; Quanshui Fu; Guoqing Yang; Anpeng Huang; Yi Zhao 013 (CoRR, 2020)

LSD 3.0: a comprehensive resource for the leaf senescence research community. - Zhonghai Li; Yang Zhang 042; Dong Zou; Yi Zhao 013; Hou-Ling Wang; Yi Zhang; Xinli Xia; Jingchu Luo; Hongwei Guo; Zhang Zhang 002 (Nucleic Acids Res., 2020)

NPInter v4.0: an integrated database of ncRNA interactions. - XueYi Teng; Xiaomin Chen; Hua Xue; Yiheng Tang; Peng Zhang 047; Quan Kang; Yajing Hao 001; Runsheng Chen; Yi Zhao 013; Shunmin He (Nucleic Acids Res., 2020)

Single-cell Long Non-coding RNA Landscape of T Cells in Human Cancer Immunity. - Haitao Luo; Dechao Bu; Lijuan Shao; Yang Li 126; Liang Sun; Ce Wang; Jing Wang 166; Wei Yang; Xiaofei Yang 010; Jun Dong; Yi Zhao 013; Furong Li (Genom. Proteom. Bioinform., 2021)

KOBAS-i: intelligent prioritization and exploratory visualization of biological functions for gene enrichment analysis. - Dechao Bu; Haitao Luo; Peipei Huo; Zhihao Wang; Shan Zhang; Zihao He; Yang Wu; Lianhe Zhao; Jingjia Liu; Jincheng Guo; Shuangsang Fang; Wanchen Cao; et al. (Nucleic Acids Res., 2021)

HERB: a high-throughput experiment- and reference-guided database of traditional Chinese medicine. - Shuangsang Fang; Lei Dong; Liu Liu; Jincheng Guo; Lianhe Zhao; Jiayuan Zhang; Dechao Bu; Xinkui Liu; Peipei Huo; Wanchen Cao; Qiongye Dong; Jiarui Wu; et al. (Nucleic Acids Res., 2021)

Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. - Yongbiao Xue; Yiming Bao; Zhang Zhang 002; Wenming Zhao; Jing-Fa Xiao; Shunmin He; Guoqing Zhang 006; Yixue Li; Guoping Zhao; Runsheng Chen; Shuhui Song; Lina Ma; et al. (Nucleic Acids Res., 2021)

ncFANs v2.0: an integrative platform for functional annotation of non-coding RNAs. - Yuwei Zhang 007; Dechao Bu; Peipei Huo; Zhihao Wang; Hao Rong; Yanguo Li; Jingjia Liu; Meng Ye 010; Yang Wu; Zheng Jiang; Qi Liao; Yi Zhao 013 (Nucleic Acids Res., 2021)

NONCODEV6: an updated database dedicated to long non-coding RNA annotation in both animals and plants. - Lianhe Zhao; Jiajia Wang; Yanyan Li; Tingrui Song; Yang Wu; Shuangsang Fang; Dechao Bu; Hui Li 038; Liang Sun; Dong Pei; Yu Zheng 030; Jianqin Huang; et al. (Nucleic Acids Res., 2021)

Multi-modality artificial intelligence in digital pathology. - Yixuan Qiao; Lianhe Zhao; Chunlong Luo; Yufan Luo; Yang Wu; Shengtong Li; Dechao Bu; Yi Zhao 013 (Briefings Bioinform., 2022)

dbDEMC 3.0: Functional Exploration of Differentially Expressed miRNAs in Cancers of Human and Model Organisms. - Feng Xu; Yifan Wang; Yunchao Ling; Chenfen Zhou; Haizhou Wang; Andrew E. Teschendorff; Yi Zhao 013; Haitao Zhao; Yungang He; Guoqing Zhang 006; Zhen Yang (Genom. Proteom. Bioinform., 2022)

piRBase: integrating piRNA annotation in all aspects. - Jiajia Wang; Yirong Shi; Honghong Zhou; Peng Zhang 047; Tingrui Song; Zhiye Ying; Haopeng Yu; Yanyan Li; Yi Zhao 013; Xiaoxi Zeng; Shunmin He; Runsheng Chen (Nucleic Acids Res., 2022)

NPInter v5.0: ncRNA interaction database in a new era. - Yu Zheng 030; Huaxia Luo; XueYi Teng; Xinpei Hao; Xiaoyu Yan; Yiheng Tang; Wanyu Zhang; Yuanxin Wang; Peng Zhang 047; Yanyan Li; Yi Zhao 013; Runsheng Chen; et al. (Nucleic Acids Res., 2023)

Biological knowledge graph-guided investigation of immune therapy response in cancer with graph neural network. - Lianhe Zhao; Xiaoning Qi; Yang Chen; Yixuan Qiao; Dechao Bu; Yang Wu; Yufan Luo; Sheng Wang; Rui Zhang; Yi Zhao 013 (Briefings Bioinform., 2023)

MiHATP:A Multi-hybrid Attention Super-Resolution Network for Pathological Image Based on Transformation Pool Contrastive Learning. - Zhufeng Xu; Jiaxin Qin; Chenhao Li; Dechao Bu; Yi Zhao 013 (MICCAI (7), 2024)

Predicting transcriptional responses to novel chemical perturbations using deep generative model for drug discovery. - Xiaoning Qi; Lianhe Zhao; Yi Zhao 013 (Zenodo, 2024)

Predicting transcriptional responses to novel chemical perturbations using deep generative model for drug discovery. - Xiaoning Qi; Lianhe Zhao; Yi Zhao 013 (Zenodo, 2024)

CIEC: Cross-tissue Immune Cell Type Enrichment and Expression Map Visualization for Cancer. - Jinhua He; Haitao Luo; Wei Wang 269; Dechao Bu; Zhengkai Zou; Haolin Wang; Hongzhen Tang; Zeping Han; Wenfeng Luo; Jian Shen; Fangmei Xie; Yi Zhao 013; et al. (Genom. Proteom. Bioinform., 2025)

Enzyme Repertoires and Genomic Insights into Lycium barbarum Pectin Polysaccharide Biosynthesis. - Haiyan Yue; Yiheng Tang; Aixuan Li; Lili Zhang 007; Yiwei Niu; Yiming Zhang; Hao Wang; Jianjun Luo 001; Yi Zhao 013; Shunmin He; Chang Chen; Runsheng Chen (Genom. Proteom. Bioinform., 2025)