This repository contains the scripts to reproduce the figures for our paper titled 'IGSF8 is an Innate Immune Checkpoint and Cancer Immunotherapy Target'
The self-contained OncoMark package is required to run the scripts. The package can be installed by running the following command:
git clone https://github.com/gv20-therapeutics/IGSF8-NK.git
cd IGSF8-NK
pip install -e .
The scripts to reproduce the figures are located in the notebooks folder. The figures folder contains the figures generated by the scripts. See the following table for the description of each notebook.
| File Name | Description |
|---|---|
| 01_pan-cancer_analysis_of_IGSF8.ipynb | Related to Fig.3A, Fig.3C, Fig.S3D, Fig.S3E, Fig.S3K-N |
| 02_scRNAseq_of_IGSF8.ipynb | Related to Fig.3B and Fig.3D |
| 03_prognostic_association_of_IGSF8_with_survival.ipynb | Related to Fig.3F and Fig.S4B |
| 04_prognostic_association_of_IGSF8_with_ICB_response.ipynb | Related to Fig.3G and Fig.S4C |
| 05_pan-cancer_analysis_of_KIR3DL2.ipynb | Related to Fig.S3F, Fig.S3G, Fig.S4E and Fig.S4F |
| 06_association_between_IGSF8_and_B2M.ipynb | Related to Fig.3H, Fig.S3I, Fig.S1H |
| 07_association_between_IGSF8_and_HLA.ipynb | Related to Fig.S4G, Fig.S4H, Fig.S4J |
This project is licensed under the terms of License.
Copyright 
Dr. Shirley Liu @ CCMB Seminar Series, 2023
The full paper can be accessed here. Please cite our paper if you use the code or data for your research.
@article {
author = {Yulong Li, Xiangyang Wu, Caibin Sheng, Hailing Liu, Huizhu Liu, Yixuan Tang, Chao Liu, Qingyang Ding, Bin Xie, Xi Xiao, Rongbin Zheng, Quan Yu, Zengdan Guo, Jian Ma, Jin Wang, Jinghong Gao, Mei Tian, Wei Wang, Jia Zhou, Li Jiang, Mengmeng Gu, Sailing Shi, Michael Paull, Guanhua Yang, Wei Yang, Steve Landau, Xingfeng Bao, Xihao Hu, X. Shirley Liu, Tengfei Xiao},
title = {IGSF8 is an innate immune checkpoint and cancer immunotherapy target},
year = {2024},
URL = {https://doi.org/10.1016/j.cell.2024.03.039},
journal = {Cell}
}