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| Status |
Public on Jun 06, 2020 |
| Title |
Dissecting the transcriptomic landscape of the human intrahepatic cholangiocarcinoma by single cell RNA-sequencing analysis. |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Intrahepatic cholangiocarcinoma (ICC) is the second most common malignancy arising in the liver, featured with high tumor heterogeneity and dismal prognosis. The cellular disversity and molecular basis of tumor cells interacted with surrounding niche cells remains poorly understood, limiting the development of targeted anti-tumor therapies.
To investigate the molecular diversity of fibroblast population, 2 tumor samples: ICC32S and STROMA24T were recruited in our study to perform fibroblast enriched scRNA-seq
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| Overall design |
To comprehensively elucidate the ICC heterogeneity, we employed single-cell RNA sequencing (scRNA-seq) to profile 31,302 cells of five ICC samples, as well as three paired adjacent non-tumor tissues. Our results identify 31 cell subtypes and the heterogeneous malignant subtype was highly patient-specific, which has differential proliferative, migratory and inflammation phenotype.
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| Contributor(s) |
Zhang M, Yan X, Liu B |
| Citation |
Zhang M, Yang H, Wan L, Wang Z, Wang H, Ge C, Liu Y, Hao Y, Zhang D, Shi G, Gong Y, Ni Y, Wang C, Zhang Y, Xi J, Wang S, Shi L, Zhang L, Yue W, Pei X, Liu B, and Yan X. Single cell transcriptomic architecture and intercellular crosstalk of human intrahepatic cholangiocarcinoma. Journal of Hepatology (2020). doi:10.1016/j.jhep.2020.05.039
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| Submission date |
Dec 31, 2019 |
| Last update date |
Jun 06, 2020 |
| Contact name |
Min Zhang |
| E-mail(s) |
dermingammc@sina.com
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| Phone |
13241302826
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| Organization name |
Academy of Military Medical Sciences
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| Department |
The Fifth Medical Center of Chinese PLA General Hospital
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| Street address |
No. 8 East Road, Fengtai District
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| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100071 |
| Country |
China |
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| Platforms (2) |
| GPL20795 |
HiSeq X Ten (Homo sapiens) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA598336 |
| SRA |
SRP239174 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE142784_RAW.tar |
25.1 Mb |
(http)(custom) |
TAR (of CSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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