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| Status |
Public on Feb 22, 2023 |
| Title |
Single-cell and spatial transcriptome analysis reveals the cellular heterogeneity of liver metastatic colorectal cancer |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
In this study, we comprehensively charted the cellular landscape of colorectal cancer (CRC) and well-matched liver metastatic CRC using single-cell and spatial transcriptome RNA sequencing. We generated 41892 CD45- non-immune cells and 196473 CD45+ immune cells from 27 samples of 6 CRC patients, and found that CD8_CXCL13 and CD4_CXCL13 subsets increased significantly in liver metastatic samples that exhibited high proliferation ability and tumor-activating characterization, contributing to better prognosis of patients. Distinct fibroblast profiles were observed in primary and liver metastatic tumors. The F3+ fibroblasts enriched in primary tumors contributed to worse overall survival by expressing pro-tumor factors. However, the MCAM+ fibroblasts enriched in liver metastatic tumors might promote generation of CD8_CXCL13 cells through Notch signaling. In summary, we extensively analyzed the transcriptional differences of cell atlas between primary and liver metastatic tumors of CRC by single-cell and spatial transcriptome RNA sequencing, providing different dimensions of the development of liver metastasis in CRC
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| Overall design |
For single-cell RNA sequencing, 6 CRC patients with liver metastasis were enrolled after written informed consent was obtained. Primary CC, CN (at least 2 cm from matched tumors), LM, LN (at least 2 cm from matched tumors) and PB of the enrolled patients were collected following resection. All the patients received preoperative chemotherapy and/or radiotherapy. For spatial transcriptome sequencing, formalin-fixed paraffin embedded (FFPE) tissues of 6 CRC patients were prepared.
Submitter states: Raw data are not included due to patient privacy concerns, which are deposited in the CNGB Nucleotide Sequence Archive (CNSA: https://db.cngb.org/cnsa; accession number: CNP0002540 for single cell RNA sequencing data, and CNP0003321 for spatial transcriptome RNA sequencing data)
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| Web link |
https://doi.org/10.1126/sciadv.adf5464
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| Contributor(s) |
Wang F, Long J |
| Citation(s) |
37327339 |
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| Submission date |
Feb 22, 2023 |
| Last update date |
Feb 06, 2026 |
| Contact name |
Jie Long |
| E-mail(s) |
lj9358@mail.ustc.edu.cn
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| Organization name |
Guangdong Provincial People's Hospital
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| Street address |
No.106 Zhongshan 2nd Road
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| City |
Guangzhou |
| ZIP/Postal code |
510080 |
| Country |
China |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (8)
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| GSM7058757 |
colorectal cancer, primary tumor, sample 2 |
| GSM7058758 |
colorectal cancer, primary tumor, sample 3 |
| GSM7058759 |
colorectal cancer, primary tumor, sample 4 |
| GSM7058760 |
colorectal cancer, liver metastatic tumor, sample 1 |
| GSM7058761 |
colorectal cancer, liver metastatic tumor, sample 2 |
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| Relations |
| BioProject |
PRJNA937723 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE225857_RAW.tar |
607.0 Mb |
(http)(custom) |
TAR (of CSV, JPG, JSON, MTX, PNG, TSV, TXT) |
| Raw data not provided for this record |
| Processed data provided as supplementary file |
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