| Project ID: | PDAC-027 |
| Sample ID: | PDAC-027-08-1A |
| Submitted by: | NGDC (GSA) |
| Country: | CHN |
| BioProject | PRJCA001063 |
| Sample name | T8 |
| CRA accession: | CRA001160 |
| SAMC accession: | SAMC047079 |
| CRX accession: | CRX030769 |
| CRR accession: | CRR034503 |
| Cancer type: | Pancreatic Ductal Adenocarcinoma |
| Cancer type abbreviation: | PDAC |
| Primary site: | Pancreas |
| Tissue: | Pancreas uncinate process |
| Tumor grade: | III |
| Tumor status: | NA |
| Donor age: | 66 |
| Donor gender: | Female |
| Treatment: | NA |
| Other metadata: | T1cN2M0; Moderately-poorly differentiated PDAC |
| Project title: | Single-Cell RNA-seq Highlights Intra-tumoral Heterogeneity and Malignant Progression in Pancreatic Ductal Adenocarcinoma |
| Project abstract: | Herein, we implemented the single-cell RNA-seq to determine the transcriptomes of over 50,000 individual pancreatic cells from 24 primary PDAC tumors and 11 normal pancreas. We detected two ductal subtypes representing nonmalignant and malignant ductal cells in PDAC. The malignant cells show high CNV and heterogeneity within and between tumors, in which specific proliferation and metastatic sub-malignant cells present in PDAC patients. Computational cell trajectory analysis revealed that multiple pathways and TFs dynamic expressed during the malignant, proliferation and metastasis progress. By integrating single-cell transcriptomes with bulk expression prfiles for PDAC, we established the association of malignant ductal cells and T cell signals with clinical pathological features. |
| Construction protocol: | The concentration of single cell suspension was counted using Countess (Thermo) and adjusted to 1000 cells/ul. Cells were loaded according to standard protocol of the Chromium single cell 3’ kit in order to capture between 5000 cells/chip position (V2 chemistry). All the following steps were performed according to the standard manufacturer protocol. Data were sequenced on Illumina HiSeqXTen instruments using 150 nt paired-end sequencing. |
| Protocol: | 10X Genomics |
| Instrument: | Illumina HiSeq X Ten |
| Strategy: | RNA-Seq |
| Layout: | PAIRED |
| Publications: | J. Peng et al., Single-cell RNA-seq highlights intra-tumoral heterogeneity and malignant progression in pancreatic ductal adenocarcinoma. Cell Research, 2019, 29(9): 725-738 |
