生物
间质细胞
免疫系统
肿瘤微环境
转录组
人口
基因表达
腺癌
免疫组织化学
免疫学
癌症研究
基因
病理
计算生物学
癌症
遗传学
医学
环境卫生
作者
Étienne Becht,Nicolás A. Giraldo,Laetitia Lacroix,Bénédicte Buttard,Nabila Elarouci,Florent Petitprez,Janick Sèlves,Pierre Laurent‐Puig,Catheriné Sautès-Fridman,Wolf H. Fridman,Aurélien de Reyniès
出处
期刊:Genome Biology
[BioMed Central]
日期:2016-10-20
卷期号:17 (1)
被引量:2685
标识
DOI:10.1186/s13059-016-1070-5
摘要
We introduce the Microenvironment Cell Populations-counter (MCP-counter) method, which allows the robust quantification of the absolute abundance of eight immune and two stromal cell populations in heterogeneous tissues from transcriptomic data. We present in vitro mRNA mixture and ex vivo immunohistochemical data that quantitatively support the validity of our method's estimates. Additionally, we demonstrate that MCP-counter overcomes several limitations or weaknesses of previously proposed computational approaches. MCP-counter is applied to draw a global picture of immune infiltrates across human healthy tissues and non-hematopoietic human tumors and recapitulates microenvironment-based patient stratifications associated with overall survival in lung adenocarcinoma and colorectal and breast cancer.
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