Parallel single cell and bulk transcriptome analyses reveal key features of the gastric tumor microenvironment
Release date:
We combined bulk and single-cell RNA-sequencing from tumors and matched normal tissue of 24 treatment-naive GC patients to better understand which cell types and transcriptional programs are associated with malignant transformation of the stomach. Clustering 96,623 cell of non-epithelial origin revealed 96 well-defined TME cell types. Activated fibroblasts and endothelial cells were most prominently overrepresented in tumors. Intercellular network reconstruction as well as survival analysis of an independent cohort implied the importance of these cell types together with immunosuppressive myeloid cell subsets and regulatory T cells in establishing an immunosuppressive microenvironment correlating with worsened prognosis and lack of response in anti-PD1 treated patients. In contrast, a subset of IFNg activated T cells and HLA-II expressing macrophages were found to be linked to response and increased overall survival.
Data Accessibility:   
Controlled access Request Data
Study type:
Disease Study
Disease name:
stomach cancer
Data Access Committee

For each controlled access study, there is a corresponding Data Access Committee(DAC) to determine the access permissions. Access to actual data files is not managed by NGDC.

DAC name:
Contact person:
Cheng Sijin
BIOPIC, Beijing Advanced Innovation Center for Genomics, and School of Life Sciences
Individuals & samples
Submitter:   Zhang Zemin /
Organization:   Peking University
Submission date:   2022-04-25
Requests:   18