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| Status |
Public on Sep 13, 2022 |
| Title |
Single-cell RNA-seq reveals immune landscape of pancreatic cancer |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Pancreatic ductal adenocarcinoma (PDAC) has complex tumor immune microenvironment (TIME), the clinical values of which remains to be explored. This study aimed to delineate the immune landscape of PDAC and determine the clinical value of immune features in TIME. There was a significant difference in immune profiles between PDAC and adjacent normal pancreatic tissues. Several novel immune features were captured by quantitative pathology analysis on mIHC, some of which were significantly correlated to the prognosis of PDAC patients. A risk score-based prognostic model was developed according to these immune features. We also drew a user-friendly nomogram plot to predict the overall survival of patients by combining risk score and clinicopathologic features. Both mIHC and scRNA-seq analyses showed the expression of PD-L1 was scarce in PDAC. We found that PD1+ cells were distributed in different T cell subpopulations, not enriched in a specific subpopulation. In addition, there were other conserved receptor-ligand pairs (CCL5-SDC1/4) besides PD1-PD-L1 interaction between PD1+ T cells and PD-L1+ tumor cells. Our findings reveal the immune landscape of PDAC and highlight the significant value of combined application of mIHC and scRNA-seq in uncovering TIME, which might provide new clues for developing immunotherapy strategies.
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| Overall design |
All H&E stained slides from eighty patients were reviewed for confirming PDAC diagnosis by a pathologist. The corresponding tumor and adjacent noncancerous areas were carefully marked. Duplicated 1.5 mm diameter tissue cores were selectively punched and transferred to recipient tissue array blocks. The tissue microarray (TMA) was set up. For scRNA-seq analysis, a total of six PDAC and six adjacent noncancerous resection specimens were obtained from the Department of General Surgery at Peking University First Hospital. All patients with PDAC did not receive any treatments before collecting specimens.
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| Contributor(s) |
Chen K |
| Citation(s) |
36944944, 37251940 |
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| Submission date |
Sep 08, 2022 |
| Last update date |
Aug 10, 2023 |
| Contact name |
Kai Chen |
| E-mail(s) |
Drchenkai@pku.edu.cn
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| Phone |
+8618086411579
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| Organization name |
Peking University First Hospital
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| Department |
General Surgery
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| Street address |
8th Xishiku Street
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| City |
Beijing |
| ZIP/Postal code |
100034 |
| Country |
China |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA878527 |
| SRA |
SRP396295 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE212966_RAW.tar |
359.7 Mb |
(http)(custom) |
TAR (of MTX, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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