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Status |
Public on Sep 04, 2020 |
Title |
LZ013 (Adult_3) |
Sample type |
SRA |
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Source name |
testis tissue
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Organism |
Homo sapiens |
Characteristics |
disease state: normal spermatogenesis tissue: testis condition: physiologic group: Adult_3
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Extracted molecule |
polyA RNA |
Extraction protocol |
Single-cell RNA-seq libraries were prepared using the Chromium Single Cell 3′ Library & Gel Bead Kit (P/N 120237, 10× Genomics) according to the manufacturer’s instructions. RNA libraries were prepared for sequencing using standard Illumina protocols (Illumina Novaseq 6000)
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
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Data processing |
Cell Ranger software (version 2.2.0), provided by 10× Genomics, was used to demultiplex cellular barcodes, map reads to the genome and transcriptome using the STAR aligner, and downsample reads as required to generate normalized aggregate data across samples, producing a matrix of gene counts versus cells. Cells were further filtered according to the following threshold parameters: the total number of expressed genes, 500 to 9000; total UMI count, less than 35,000; and proportion of mitochondrial genes expressed, <40%. Genome_build: hg18 Supplementary_files_format_and_content: UMI values for each cell
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Submission date |
Apr 28, 2020 |
Last update date |
Sep 05, 2020 |
Contact name |
Liangyu Zhao |
E-mail(s) |
zhaoly37@mail.sysu.edu.cn
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Phone |
+86 18801902577
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Organization name |
Shanghai Jiao Tong University School of Medicinethe Fifth Affiliated Hospital of Sun Yat-sen University
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Street address |
52th Meihua Road, Zhuhai, China
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City |
Zhuhai |
State/province |
Guangdong |
ZIP/Postal code |
519000 |
Country |
China |
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Platform ID |
GPL27644 |
Series (1) |
GSE149512 |
Single-cell analysis of developing and azoospermia human testicles reveals central role of Sertoli cells |
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Relations |
BioSample |
SAMN14445369 |
SRA |
SRX8082050 |
Supplementary file |
Size |
Download |
File type/resource |
GSM4504191_LZ013matrix.csv.gz |
9.4 Mb |
(ftp)(http) |
CSV |
SRA Run Selector![Help](/coreweb/images/long_help4.gif) |
Raw data are available in SRA |
Processed data provided as supplementary file |
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