|
Status |
Public on Oct 20, 2024 |
Title |
UPEC_Bladder_Immune cells |
Sample type |
SRA |
|
|
Source name |
bladder
|
Organism |
Mus musculus |
Characteristics |
tissue: bladder cell type: Immune cells genotype: WT treatment: UPEC
|
Extracted molecule |
polyA RNA |
Extraction protocol |
The concentration of single-cell suspension was adjusted to 1×105 cells/mL in PBS. Single cell suspension was then loaded onto a microfluidic chip (part of Singleron GEXSCOPETM Single Cell RNAseq Kit, Singleron Biotechnologies) and single cell RNA-seq libraries were constructed according to the manufacturer’s instructions (Singleron Biotechnologies).
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic single cell |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
Raw reads were processed with fastQC and fastp to remove low quality reads. Poly-A tails and adaptor sequences were removed by cutadapt. After quality control, reads were mapped to the reference genome GRCh38 (ensembl version 92 annotation) using STAR. Assembly: GRCh38 Supplementary files format and content: Expression matrix files for subsequent analyses were generated based on gene counts and UMI counts.
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|
|
Submission date |
Feb 28, 2024 |
Last update date |
Oct 21, 2024 |
Contact name |
Zizhuo Yang |
E-mail(s) |
202335772@mail.sdu.edu.cn
|
Phone |
+8615662683536
|
Organization name |
Shandong University
|
Street address |
44 Wenhua West Road, Lixia District
|
City |
Jinan |
State/province |
Shandong |
ZIP/Postal code |
250100 |
Country |
China |
|
|
Platform ID |
GPL24247 |
Series (1) |
GSE260501 |
Single-cell transcriptomic mapping of immune cells in mouse bladders during urinary tract infection |
|
Relations |
BioSample |
SAMN40191539 |
SRA |
SRX23785409 |