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Sample GSM4089153 Query DataSets for GSM4089153
Status Public on Sep 01, 2020
Title Patient #3-scRNA
Sample type SRA
 
Source name Castration resistant prostate cancer (CRPC) tissue
Organism Homo sapiens
Characteristics disease state: Castration resistant prostate cancer (CRPC)
Sex: Male
age: 86
tumor stage: T2
tissue: primary tumor
Extracted molecule total RNA
Extraction protocol Tumor tissues were ressected by biopsy surgery and transported in DMEM/F12 medium on ice to the laboratory within an hour.
For scRNA-seq, the tissues were dissociated into single cells suspensions using digestion buffer (DMEM/F12 Medium+ 2 mg/ml of collagenase IV + 100 IU/ml DNase I), and single cell GEMs were generated by 10X genomics Chromium Controller. cDNA library was constructed following the manufacture’s protocol.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing CellRanger was used to base-calling, alignment, filtering and generation of normalized abundance measurements.
Read 1: contains the 16bp 10x barcode and the 10bp UMI (bases 17-26).Index contains the sample barcode. Read 2 contains the cDNA information
Genome_build: GRCh38
Supplementary_files_format_and_content: tab-delimited text files include normalized median scaling values for each cell
 
Submission date Sep 23, 2019
Last update date Sep 02, 2020
Contact name Jia Wang
E-mail(s) wj860520@163.com
Phone 15821724825
Organization name SJTU CHINA
Street address Huashan Rd. 1940, build 3. Shanghai,
City Shanghai
State/province Shanghai China
ZIP/Postal code 200017
Country China
 
Platform ID GPL24676
Series (1)
GSE137829 Single-cell analysis supports a luminal-neuroendocrine transdifferentiation in human prostate cancer
Relations
BioSample SAMN12818419
SRA SRX6887741

Supplementary file Size Download File type/resource
GSM4089153_P3_gene_cell_exprs_table.txt.gz 5.1 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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