| Accession |
PRJCA009308 |
| Title |
Parallel single cell and bulk transcriptome analyses reveal key features of the gastric tumor microenvironment |
| Relevance |
Medical |
| Data types |
Transcriptome or Gene expression
Raw sequence reads
Single cell sequencing
|
| Organisms |
Homo sapiens
|
| Description |
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. |
| Sample scope |
Single cell |
| Release date |
2022-10-01 |
| Publication |
| PubMed ID |
Article title |
Journal name |
DOI |
Year |
| 36550535
|
Parallel single-cell and bulk transcriptome analyses reveal key features of the gastric tumor microenvironment
|
Genome Biology
|
10.1186/s13059-022-02828-2
|
2022
|
|
|
| Grants |
| Agency |
program |
Grant ID |
Grant title |
| National Natural Science Foundation of China (NSFC)
|
|
81988101
|
|
| National Natural Science Foundation of China (NSFC)
|
|
91942307
|
|
| National Natural Science Foundation of China (NSFC)
|
|
31991171
|
|
| National Natural Science Foundation of China (NSFC)
|
|
81402308
|
|
| National Natural Science Foundation of China (NSFC)
|
|
82173151
|
|
| National Natural Science Foundation of China (NSFC)
|
|
81972240
|
|
| Beijing Municipal Science and Technology Commission
|
|
Z201100005320014
|
|
| Science Foundation of Peking University Cancer Hospital
|
|
2021-24
|
|
|
|
| Submitter |
Zemin
Zhang (zemin@pku.edu.cn)
|
| Organization |
Peking University |
| Submission date |
2022-04-25 |
