 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Aug 14, 2024 |
| Title |
mutant ATACseq rep1 |
| Sample type |
SRA |
| |
|
| Source name |
brain
|
| Organism |
Mus musculus |
| Characteristics |
tissue: brain
cell line: Nkx2.1 lineage cells
cell type: mouse brain cells
genotype: Tcf4 cKO
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
not provided
|
| |
|
| Library strategy |
ATAC-seq |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
trim adptors using trim_galore
mapping using bowtie2
remove duplicates using samtools
peaks calles by MACS2
diffrential accessible peaks were analyzed using R package diffbind2
Assembly: mm10
Supplementary files format and content:final differential accessible peaks with annotation
Supplementary files format and content:motif activity in WT and Tcf4 cKO
|
| |
|
| Submission date |
Oct 05, 2023 |
| Last update date |
Aug 14, 2024 |
| Contact name |
Yunli Xie |
| E-mail(s) |
yunli.xie@fudan.edu.cn
|
| Organization name |
Fudan University
|
| Department |
Institutes of Brain Science
|
| Lab |
Xie Lab
|
| Street address |
131 Dong`an Road
|
| City |
Shanghai |
| ZIP/Postal code |
200032 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE244709 |
Fate restriction governs regional astrocyte allocation during brain development |
|
| Relations |
| BioSample |
SAMN37701026 |
| SRA |
SRX22007124 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM7824627_M1_ATAC_peaks.narrowPeak.gz |
1.5 Mb |
(ftp)(http) |
NARROWPEAK |
SRA Run Selector |
| Raw data are available in SRA |
|
|
|
|
 |
