|
| Status |
Public on Feb 05, 2021 |
| Title |
P1 cortex single cell RNA-seq |
| Sample type |
SRA |
| |
|
| Source name |
mouse cortex
|
| Organism |
Mus musculus |
| Characteristics |
strain: CD1
age: P1
tissue: cortex
|
| Treatment protocol |
IS mouse were electroperated with pCAG-Cre plasmid and the cortex were harvested at P1 through FACS for scRNA-seq. For scATAC-seq, GFP+ cell were from FACS sorted E18.5 hGFAP-GFP cortex.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Chromium single cell ATAC library and single cell RNA libraries were prepared for sequencing using standard 10X genomics protocols
single cell RNA-seq and single cell ATAC-seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
sc ATAC-seq: Cell ranger-ATAC pipeline software was used for base-calling, and alignment. SCALE pipeline was used for filtering, ZINBA software was used for peak calling
ScRNA-seq: Cell ranger pipeline was used for base-calling, aligment and filtering.
Seurat was used for further analyse.
Genome_build: mm10
Supplementary_files_format_and_content: matrix data containing raw counts for all cells in scRNA-seq
raw peaks for all single cells for scATAC-seq data
|
| |
|
| Submission date |
Nov 09, 2020 |
| Last update date |
Feb 09, 2021 |
| Contact name |
Guoping Liu |
| E-mail(s) |
gpliu@fudan.edu.cn
|
| Phone |
18521006300
|
| Organization name |
Fudan University
|
| Street address |
138 Yi Xue Yuan Road
|
| City |
Shanghai |
| ZIP/Postal code |
200032 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE161132 |
Decoding Cortical Glial Cell Development |
|
| Relations |
| BioSample |
SAMN16710098 |
| SRA |
SRX9463246 |
