Dissecting esophageal squamous-cell carcinoma ecosystem by single-cell transcriptomic analysis.
Xiannian ZhangLinna PengYingying LuoShaosen ZhangYang PuYamei ChenWenjia GuoJiacheng YaoMingming ShaoWenyi FanQionghua CuiYiyi XiYanxia SunXiangjie NiuXuan ZhaoLiping ChenYuqian WangYachen LiuXinyu YangChengcheng WangCe ZhongWen TanJianbin WangChen WuDongxin LinPublished in: Nature communications (2021)
Esophageal squamous-cell carcinoma (ESCC), one of the most prevalent and lethal malignant disease, has a complex but unknown tumor ecosystem. Here, we investigate the composition of ESCC tumors based on 208,659 single-cell transcriptomes derived from 60 individuals. We identify 8 common expression programs from malignant epithelial cells and discover 42 cell types, including 26 immune cell and 16 nonimmune stromal cell subtypes in the tumor microenvironment (TME), and analyse the interactions between cancer cells and other cells and the interactions among different cell types in the TME. Moreover, we link the cancer cell transcriptomes to the somatic mutations and identify several markers significantly associated with patients' survival, which may be relevant to precision care of ESCC patients. These results reveal the immunosuppressive status in the ESCC TME and further our understanding of ESCC.
Keyphrases
- dna methylation
- single cell
- genome wide
- rna seq
- gene expression
- end stage renal disease
- high throughput
- chronic kidney disease
- copy number
- newly diagnosed
- cell therapy
- healthcare
- peritoneal dialysis
- poor prognosis
- bone marrow
- public health
- oxidative stress
- human health
- signaling pathway
- quality improvement
- patient reported
- affordable care act