deepBase v2.0: identification, expression, evolution and function of small RNAs, LncRNAs and circular RNAs from deep-sequencing data. - Ling-Ling Zheng; Jun-Hao Li; Jie Wu 026; Wen-Ju Sun; Shun Liu; Ze-Lin Wang; Hui Zhou 006; Jian-Hua Yang; Liang-Hu Qu (Nucleic Acids Res., 2016)

tRF2Cancer: A web server to detect tRNA-derived small RNA fragments (tRFs) and their expression in multiple cancers. - Ling-Ling Zheng; Wei-Lin Xu; Shun Liu; Wen-Ju Sun; Jun-Hao Li; Jie Wu 026; Jian-Hua Yang; Liang-Hu Qu (Nucleic Acids Res., 2016)

ChIPBase v2.0: decoding transcriptional regulatory networks of non-coding RNAs and protein-coding genes from ChIP-seq data. - Keren Zhou 002; Shun Liu; Wen-Ju Sun; Ling-Ling Zheng; Hui Zhou 006; Jian-Hua Yang; Liang-Hu Qu (Nucleic Acids Res., 2017)

RMBase v2.0: deciphering the map of RNA modifications from epitranscriptome sequencing data. - Jia-Jia Xuan; Wen-Ju Sun; Peng-Hui Lin; Keren Zhou 002; Shun Liu; Ling-Ling Zheng; Liang-Hu Qu; Jian-Hua Yang (Nucleic Acids Res., 2018)

dreamBase: DNA modification, RNA regulation and protein binding of expressed pseudogenes in human health and disease. - Ling-Ling Zheng; Keren Zhou 002; Shun Liu; Dingyao Zhang; Ze-Lin Wang; Zhi-Rong Chen; Jian-Hua Yang; Liang-Hu Qu (Nucleic Acids Res., 2018)

ColorCells: a database of expression, classification and functions of lncRNAs in single cells. - Ling-Ling Zheng; Jing-Hua Xiong; Wu-Jian Zheng; Jun-Hao Wang; Zi-Liang Huang; Zhi-Rong Chen; Xin-Yao Sun; Yi-Min Zheng; Keren Zhou 002; Bin Li 060; Shun Liu; Liang-Hu Qu; et al. (Briefings Bioinform., 2021)

deepBase v3.0: expression atlas and interactive analysis of ncRNAs from thousands of deep-sequencing data. - Fangzhou Xie; Shurong Liu; Junhao Wang; Jia-Jia Xuan; Xiaoqin Zhang; Liang-Hu Qu; Ling-Ling Zheng; Jianhua Yang (Nucleic Acids Res., 2021)

Pol3Base: a resource for decoding the interactome, expression, evolution, epitranscriptome and disease variations of Pol III-transcribed ncRNAs. - Li Cai; Jia-Jia Xuan; Qiao Lin; Junhao Wang; Shurong Liu; Fangzhou Xie; Ling-Ling Zheng; Bin Li 060; Liang-Hu Qu; Jianhua Yang (Nucleic Acids Res., 2022)

tsRFun: a comprehensive platform for decoding human tsRNA expression, functions and prognostic value by high-throughput small RNA-Seq and CLIP-Seq data. - Jun-Hao Wang; Wen-Xin Chen; Shi-Qiang Mei; Yue-Dong Yang; Jian-Hua Yang; Liang-Hu Qu; Ling-Ling Zheng (Nucleic Acids Res., 2022)

ChIPBase v3.0: the encyclopedia of transcriptional regulations of non-coding RNAs and protein-coding genes. - Junhong Huang; Wu-Jian Zheng; Ping Zhang; Qiao Lin; Zhi-Rong Chen; Jia-Jia Xuan; Chang Liu; Di Wu; Qiaojuan Huang; Ling-Ling Zheng; Shurong Liu; Keren Zhou 002; et al. (Nucleic Acids Res., 2023)

tModBase: deciphering the landscape of tRNA modifications and their dynamic changes from epitranscriptome data. - Hao-Tian Lei; Zhang-Hao Wang; Bin Li 060; Yang Sun; Shi-Qiang Mei; Jian-Hua Yang; Liang-Hu Qu; Ling-Ling Zheng (Nucleic Acids Res., 2023)