Z
Ziyi Li
Researcher at Tongji University
Publications - 15
Citations - 2989
Ziyi Li is an academic researcher from Tongji University. The author has contributed to research in topics: Immune system & Melanoma. The author has an hindex of 5, co-authored 12 publications receiving 754 citations. Previous affiliations of Ziyi Li include Harvard University.
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Journal ArticleDOI
Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response
Peng Jiang,Shengqing Gu,Deng Pan,Jingxin Fu,Avinash Das Sahu,Xihao Hu,Ziyi Li,Nicole Traugh,Xia Bu,Bo Li,Bo Li,Jun Liu,Gordon J. Freeman,Myles Brown,Kai W. Wucherpfennig,X. Shirley Liu +15 more
TL;DR: An algorithm-selected gene signature focused on tumor immune evasion and suppression predicts response to immune checkpoint blockade in melanoma, exceeding the accuracy of current clinical biomarkers.
Journal ArticleDOI
TISCH: a comprehensive web resource enabling interactive single-cell transcriptome visualization of tumor microenvironment.
Dongqing Sun,Jin Wang,Ya Han,Xin Dong,Jun Ge,Rongbin Zheng,Xiaoying Shi,Binbin Wang,Ziyi Li,Pengfei Ren,Liangdong Sun,Yilv Yan,Peng Zhang,Fan Zhang,Taiwen Li,Chenfei Wang +15 more
TL;DR: Tumor Immune Single Cell Hub is presented, a large-scale curated database that integrates single-cell transcriptomic profiles of nearly 2 million cells from 76 high-quality tumor datasets across 27 cancer types and provides a user-friendly interface for systematically visualizing, searching and downloading gene expression atlas in the TME from multiple cancer types, enabling fast, flexible and comprehensive exploration of the Tme.
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Integrative analysis of pooled CRISPR genetic screens using MAGeCKFlute.
Binbin Wang,Mei Wang,Wubing Zhang,Tengfei Xiao,Chen-Hao Chen,Alexander C. Wu,Feizhen Wu,Nicole Traugh,Xiaoqing Wang,Ziyi Li,Shenglin Mei,Yingbo Cui,Sailing Shi,Jesse J. Lipp,Matthias Hinterndorfer,Johannes Zuber,Myles Brown,Wei Li,Wei Li,X. Shirley Liu,X. Shirley Liu +20 more
TL;DR: This protocol explains how to use MAGeCKFlute to perform quality control (QC), normalization, batch effect removal, copy-number bias correction, gene hit identification and downstream functional enrichment analysis for CRISPR screens.
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Integrative analyses of single-cell transcriptome and regulome using MAESTRO.
Chenfei Wang,Dongqing Sun,Xin Huang,Changxin Wan,Ziyi Li,Ya Han,Qian Qin,Jingyu Fan,Xintao Qiu,Yingtian Xie,Clifford A. Meyer,Myles Brown,Ming Tang,Henry W. Long,Tao Liu,X. Shirley Liu +15 more
TL;DR: Model-based AnalysEs of Transcriptome and RegulOme (MAESTRO), a comprehensive open-source computational workflow for the integrative analyses of single-cell RNA-seq and ATAC-seq data from multiple platforms, is presented.
Journal ArticleDOI
Single-cell and spatial analysis reveal interaction of FAP+ fibroblasts and SPP1+ macrophages in colorectal cancer
Jingjing Qi,Hongxiang Sun,Yao Zhang,Zhengting Wang,Zhenzhen Xun,Ziyi Li,X.D. Ding,Rujuan Bao,Liwen Hong,Wen-Qing Jia,Fei Fang,Hongzhi Liu,Lei Chen,Jie Zhong,Duo-Wu Zou,Lianxin Liu,Leng Han,Florent Ginhoux,Yingbin Liu,Youqiong Ye,Bingwei Su +20 more
TL;DR: In this paper , the tumor-specific FAP+ fibroblasts and SPP1+ macrophages were positively correlated in 14 independent CRC cohorts containing 2550 samples and validate their close localization by immuno-fluorescent staining and spatial transcriptomics.