CIEC: Cross-tissue Immune Cell Type Enrichment and Expression Map Visualization for Cancer

doi:10.1093/gpbjnl/qzae067

	CIEC: Cross-tissue Immune Cell Type Enrichment and Expression Map Visualization for Cancer
	He, Jinhua 1; Luo, Haitao 2; Wang, Wei 2; Bu, Dechao 3; Zou, Zhengkai 4; Wang, Haolin 4; Tang, Hongzhen 2; Han, Zeping 1; Luo, Wenfeng 1; Shen, Jian 1; Xie, Fangmei 1; Zhao, Yi 3; Xiang, Zhiming 1
	2025-02-01
发表期刊	GENOMICS PROTEOMICS & BIOINFORMATICS
ISSN	1672-0229
卷号	23 期号:1 页码:8
摘要	Single-cell transcriptome sequencing technology has been applied to decode the cell types and functional states of immune cells, revealing their tissue-specific gene expression patterns and functions in cancer immunity. Comprehensive assessments of immune cells within and across tissues will provide us with a deeper understanding of the tumor immune system in general. Here, we present Cross-tissue Immune cell type or state Enrichment analysis of gene lists for Cancer (CIEC), the first web-based application that integrates database and enrichment analysis to estimate the cross-tissue immune cell types or states. CIEC version 1.0 consists of 480 samples covering primary tumor, adjacent normal tissue, lymph node, metastasis tissue, and peripheral blood from 323 cancer patients. By applying integrative analysis, we constructed an immune cell type/state map for each context, and adopted our previously developed Kyoto Encyclopedia of Genes and Genomes (KEGG) Orthology Based Annotation System (KOBAS) algorithm to estimate the enrichment for context-specific immune cell types/states. In addition, CIEC also provides an easy-to-use online interface for users to comprehensively analyze the immune cell characteristics mapped across multiple tissues, including expression map, correlation, similar gene detection, signature score, and expression comparison. We believe that CIEC will be a valuable resource for exploring the intrinsic characteristics of immune cells in cancer patients and for potentially guiding novel cancer-immune biomarker development and immunotherapy strategies. CIEC is freely accessible at http://ciec.gene.ac/.
关键词	Cancer single-cell data Cross-tissue analysis Immune cell Enrichment analysis Expression map
DOI	10.1093/gpbjnl/qzae067
收录类别	SCI
语种	英语
资助项目	National Key R&D Program of China[2022YFF1203303] ; Basic and Applied Basic Research Foundation of Science and Technology Research Project of Guangdong Province[A2024164] ; Basic and Applied Basic Research Foundation of Science and Technology Research Project of Guangdong Province[A2024270] ; Basic and Applied Basic Research Foundation of Science and Technology Research Project of Guangdong Province[A2023216] ; Basic and Applied Basic Research Foundation of Science and Technology Research Project of Guangdong Province[A2022524] ; Basic and Applied Basic Research Foundation of Science and Technology Research Project of Guangdong Province[A2020304] ; Guangdong Basic and Applied Basic Research Foundation[2022A1515220217] ; Science and Technology Program of Guangzhou[202201010840] ; Science and Technology Program of Guangzhou[202201010810] ; Science and Technology Program of Guangzhou[202102080532] ; Science and Technology Program of Guangzhou[202002030032] ; Science and Technology Program of Guangzhou[202002020023] ; Science and Technology Program of Guangzhou[20211A011116] ; Health Commission Program of Guangzhou[20212A010025] ; Health Commission Program of Guangzhou[20201A010085] ; Science and Technology Project of Panyu, Guangzhou[2022-Z04-009] ; Science and Technology Project of Panyu, Guangzhou[2022-Z04-090] ; Science and Technology Project of Panyu, Guangzhou[2022-Z04-072] ; Science and Technology Project of Panyu, Guangzhou[2021-Z04-053] ; Scientific Research Project of Guangzhou Panyu Central Hospital[PY-2023-001] ; Scientific Research Project of Guangzhou Panyu Central Hospital[PY-2023-002] ; Scientific Research Project of Guangzhou Panyu Central Hospital[PY-2023-003] ; Scientific Research Project of Guangzhou Panyu Central Hospital[PY-2023-004] ; Scientific Research Project of Guangzhou Panyu Central Hospital[PY-2023-005] ; Scientific Research Project of Guangzhou Panyu Central Hospital[2022Y002] ; Scientific Research Project of Guangzhou Panyu Central Hospital[2021Y004] ; Scientific Research Project of Guangzhou Panyu Central Hospital[2021Y002]
WOS研究方向	Genetics & Heredity
WOS类目	Genetics & Heredity
WOS记录号	WOS:001484564800001
出版者	OXFORD UNIV PRESS
引用统计
文献类型	期刊论文
条目标识符	http://119.78.100.204/handle/2XEOYT63/40641
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Luo, Haitao; Zhao, Yi; Xiang, Zhiming
作者单位	1.Guangzhou Med Univ, Cent Lab, Affiliated Panyu Cent Hosp, Guangzhou 511400, Peoples R China 2.YuceBio Technol Co Ltd, Shenzhen Engn Ctr Translat Med Precis Canc Immunod, Shenzhen 518081, Peoples R China 3.Chinese Acad Sci, Inst Comp Technol, Res Ctr Ubiquitous Comp Syst, Beijing 100190, Peoples R China 4.Beijing Univ Chinese Med, Sch Management, Beijing 100029, Peoples R China
推荐引用方式 GB/T 7714	He, Jinhua,Luo, Haitao,Wang, Wei,et al. CIEC: Cross-tissue Immune Cell Type Enrichment and Expression Map Visualization for Cancer[J]. GENOMICS PROTEOMICS & BIOINFORMATICS,2025,23(1):8.
APA	He, Jinhua.,Luo, Haitao.,Wang, Wei.,Bu, Dechao.,Zou, Zhengkai.,...&Xiang, Zhiming.(2025).CIEC: Cross-tissue Immune Cell Type Enrichment and Expression Map Visualization for Cancer.GENOMICS PROTEOMICS & BIOINFORMATICS,23(1),8.
MLA	He, Jinhua,et al."CIEC: Cross-tissue Immune Cell Type Enrichment and Expression Map Visualization for Cancer".GENOMICS PROTEOMICS & BIOINFORMATICS 23.1(2025):8.