|
| 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.
|
| |
|
| 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 |
