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| Status |
Public on Apr 20, 2023 |
| Title |
Case2-ZY |
| Sample type |
SRA |
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| Source name |
hepatic metastases
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| Organism |
Homo sapiens |
| Characteristics |
tissue: liver
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| Treatment protocol |
All samples came from the affiliated hospital of Nanjing University Medical School of, Nanjing China and this work obtained patients informed consent approved by the Institutional Review Board of Nanjing University Medical School.
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| Growth protocol |
Normal pancreatic tissue, primary pancreatic tumors and paired hepatic metastases
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| Extracted molecule |
total RNA |
| Extraction protocol |
Human pancreatic or liver were excised and mechanically dissociated into single cells using pancreatic digestive enzymes
Single cells were captured in the 10×Genomics Chromium Single Cell 3' Solution, and RNA-seq libraries were prepared following the manufacturer’s protocol (10×Genomics). The libraries were subjected to high-throughput sequencing on an illumina NextSeq500 platform, and 150-bp paired-end reads were generated.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
Sample demultiplexing, barcode processing, and single cell 3’ gene counting were performed by the Cell Ranger pipelines (v3.1.0,10X Genomics).
Genome_build: GRCh38
Supplementary_files_format_and_content: TSV files with genes and barcode sequences corresponding to row and column indices, respectively.
Supplementary_files_format_and_content: matrix.mtx: Filtered gene-barcode matrix file (demultiplexed)
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| Submission date |
Feb 22, 2022 |
| Last update date |
Apr 20, 2023 |
| Contact name |
Dijun Chen |
| E-mail(s) |
dijunchen@nju.edu.cn
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| Organization name |
Nanjing University
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| Department |
Life Sciences
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| Street address |
Xianlin
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| City |
Nanjing |
| State/province |
Jiangsu |
| ZIP/Postal code |
310028 |
| Country |
China |
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| Platform ID |
GPL18573 |
| Series (1) |
| GSE197177 |
A single-cell atlas of the tumor, stromal and immune microenvironments in pancreatic cancer liver metastasis |
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| Supplementary file |
Size |
Download |
File type/resource |
| GSM5910788_Case2-ZY_barcodes.tsv.gz |
46.9 Kb |
(ftp)(http) |
TSV |
| GSM5910788_Case2-ZY_features.tsv.gz |
297.6 Kb |
(ftp)(http) |
TSV |
| GSM5910788_Case2-ZY_matrix.mtx.gz |
48.9 Mb |
(ftp)(http) |
MTX |
| Raw data not provided for this record |
| Processed data provided as supplementary file |
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