VIPER: Visualization Pipeline for RNA-seq, a Snakemake workflow for efficient and complete RNA-seq analysis. - MacIntosh Cornwell; Mahesh Vangala; Len Taing; Zachary Herbert; Johannes Köster; Bo Li; Hanfei Sun; Taiwen Li; Jian Zhang; Xintao Qiu; Matthew Pun; Rinath Jeselsohn; et al. (BMC Bioinform., 2018)

TIMER2.0 for analysis of tumor-infiltrating immune cells. - Taiwen Li; Jingxin Fu; Zexian Zeng; David Cohen; Jing Li; Qianming Chen; Bo Li; Xiaole Shirley Liu (Nucleic Acids Res., 2020)

TISCH: a comprehensive web resource enabling interactive single-cell transcriptome visualization of tumor microenvironment. - Dongqing Sun; Jin Wang; Ya Han; Xin Dong 013; Jun Ge; Rongbin Zheng; Xiaoying Shi; Binbin Wang; Ziyi Li 005; Pengfei Ren; Liangdong Sun; Yilv Yan; et al. (Nucleic Acids Res., 2021)

TISCH2: expanded datasets and new tools for single-cell transcriptome analyses of the tumor microenvironment. - Ya Han; Yuting Wang; Xin Dong 013; Dongqing Sun; Zhaoyang Liu; Jiali Yue; Haiyun Wang; Taiwen Li; Chenfei Wang (Nucleic Acids Res., 2023)

HUSCH: an integrated single-cell transcriptome atlas for human tissue gene expression visualization and analyses. - Xiaoying Shi; Zhiguang Yu; Pengfei Ren; Xin Dong; Xuanxin Ding; Jiaming Song; Jing Zhang; Taiwen Li; Chenfei Wang (Nucleic Acids Res., 2023)

SCREE: a comprehensive pipeline for single-cell multi-modal CRISPR screen data processing and analysis. - Hailin Wei; Tong Han; Taiwen Li; Qiu Wu; Chenfei Wang (Briefings Bioinform., 2023)