Multi-gradient Permutation Survival Analysis Identifies Mitosis and Immune Signatures Steadily Associated with Cancer Patient Prognosis

doi:10.1101/2024.02.20.581166

	Multi-gradient Permutation Survival Analysis Identifies Mitosis and Immune Signatures Steadily Associated with Cancer Patient Prognosis
	Cai, Xinlei 1; Ye, Yi 2; Liu, Xiaoping 1; Fang, Zhaoyuan 5,6; Chen, Luonan1,2,7 ; Li, Fei 3,4,9,10; Ji, Hongbin1,2,7,8
	2024-02-22
状态	已发表
摘要	The inconsistency of the association between genes and cancer prognosis is often attributed to many variables that contribute to patient survival. Whether there exist the Genes Steadily Associated with Prognosis (GEARs) and what their functions are remain largely elusive. We have developed a novel method called "Multi-gradient Permutation Survival Analysis " (MEMORY) to screen the GEARs using RNA-seq data from the TCGA database. Then we employed a network construction approach to identify hub genes from GEARs, and utilized them for cancer classification. In the case of LUAD, the GEARs were found to be related to mitosis. Our analysis suggested that LUAD cell lines carrying PIK3CA mutations exhibit increased drug resistance. For BRCA, the GEARs were related to immunity. The analysis revealed that CDH1 mutation might influence immune infiltration through the EMT process in BRCA. We further explored the prognostic relevance of mitosis and immunity through their respective scores. This study offers significant biological insights into GEARs and highlights their potential as robust prognostic indicators across diverse cancer types.
关键词	Multi-gradient Permutation Survival Analysis (MEMORY) Gene Steadily Associated with Prognosis (GEAR) Hub Genes Mitosis Immune
语种	英语
DOI	10.1101/2024.02.20.581166
相关网址	查看原文
出处	bioRxiv
收录类别	PPRN.PPRN
WOS记录号	PPRN:87786709
WOS类目	Oncology
资助项目	National Key Research and Development Program of China["SSMU-ZLCX20180500","ZDBS-LY-SM006","82341002","2022YFA1103900","21ZR1470300"] ; National Natural Science Foundation of China["32293192","2020YFA0803300"] ; Basic Frontier Scientific Research Program of Chinese Academy of Science[82030083] ; Innovative research team of high-level local universities in Shanghai[82173340] ; Science and Technology Commission of Shanghai Municipality[82273400] ; null[32100593] ; null[82203306] ; null[82372763] ; null[82303916] ; null[82303039] ; null[82141101] ; null[2022hwyq16] ; null[82372794]
文献类型	预印本
条目标识符	https://kms.shanghaitech.edu.cn/handle/2MSLDSTB/372997
专题	生命科学与技术学院生命科学与技术学院_特聘教授组_季红斌组生命科学与技术学院_特聘教授组_陈洛南组
通讯作者	Li, Fei; Ji, Hongbin
作者单位	1.Univ Chinese Acad Sci, Hangzhou Inst Adv Study, Sch Life Sci, Key Lab Syst Hlth Sci Zhejiang Prov, Hangzhou 310024, Peoples R China 2.Chinese Acad Sci, Shanghai Inst Biochem & Cell Biol, Ctr Excellence Mol Cell Sci, State Key Lab Cell Biol, Shanghai 200031, Peoples R China 3.Fudan Univ, Sch Basic Med Sci, Dept Pathol, Shanghai, Peoples R China 4.Fudan Univ, Frontier Innovat Ctr, Sch Basic Med Sci, Shanghai, Peoples R China 5.Zhejiang Univ, Zhejiang Univ Univ Edinburgh Inst, Sch Med, Haining 314400, Peoples R China 6.Zhejiang Univ, Affiliated Hosp 2, Sch Med, Hangzhou 310000, Peoples R China 7.Shanghai Tech Univ, Sch Life Sci & Technol, Shanghai 200120, Peoples R China 8.Chinese Acad Sci, Shanghai Inst Biochem & Cell Biol, Ctr Excellence Mol Cell Sci, State Key Lab Cell Biol, 320 Yue Yang Rd, Shanghai 200031, Peoples R China 9.Fudan Univ, Dept Pathol, 131 Dong An Rd, Shanghai 200032, Peoples R China 10.Fudan Univ, Frontier Innovat Ctr, Sch Basic Med Sci, 131 Dong An Rd, Shanghai 200032, Peoples R China
推荐引用方式 GB/T 7714	Cai, Xinlei,Ye, Yi,Liu, Xiaoping,et al. Multi-gradient Permutation Survival Analysis Identifies Mitosis and Immune Signatures Steadily Associated with Cancer Patient Prognosis. 2024.