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Sample GSM5252457 Query DataSets for GSM5252457
Status Public on Jul 07, 2021
Title D17PrPzF_Via (3)
Sample type SRA
 
Source name Viable human prostate peripheral zone
Organism Homo sapiens
Characteristics patient phenotype: Donor (Normal)
prostatic zone: Peripheral Zone
digestion enzyme: 5mg/mL Collagenase I 4hr
facs ab profile: Via-
10x library type: 3'GEXv2
Treatment protocol Populations of single-cells dissociated from health prostates from organ donors were isolated by FACS
Extracted molecule total RNA
Extraction protocol Single-cell suspensions containing ~17400 cells were loaded on 10x Genomics Chromium single-cell Controller with 3’ library and gel bead kit v2 according to manufacture’s recommendations
According to 10x Genomics’ protocol, sequenced (R1=26cycles R2=58cycles, i7=8cycles on NextSeq 500) OR (PE150 on NovaSeq 6000)
scRNA-seq
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description re-analysis of GSM4337423
Data processing Illumina's RTA version 1.18.66.3 was used for basecalling
10x Genomics’ cellranger mkfastq version 4.0.0 was used to demultiplex fastqs using default settings
10x Genomics’ cellranger count version 4.0.0 was used to generate mapped bam files using default settings combining fastq's from NextSeq 500 and NovaSeq 6000
Genome_build: GRCh38
Supplementary_files_format_and_content: Genes-by-cells matrix in Hierarchical Data Format 5 File (H5)
 
Submission date Apr 19, 2021
Last update date Jul 07, 2021
Contact name Gervaise H. Henry
E-mail(s) [email protected]
Phone 2146480497
Organization name UT Southwestern Medical Center
Department Urology
Lab Strand Lab
Street address 5323 Harry Hines Blvd, Mail Code:9110
City Dallas
State/province Texas
ZIP/Postal code 75390
Country USA
 
Platform ID GPL18573
Series (2)
GSE172316 Single-cell RNA-sequencing of adult human prostates from organ donors v2
GSE172357 Single-cell RNA-sequencing of adult human normal and BPH (glandular and stroma) prostates and urethra
Relations
Reanalysis of GSM4337423
BioSample SAMN18795980

Supplementary file Size Download File type/resource
GSM5252457_D17PrPzF_Via_filtered_feature_bc_matrix.h5 24.4 Mb (ftp)(http) H5
Raw data are available in SRA
Processed data provided as supplementary file

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