|
Status |
Public on Jul 11, 2022 |
Title |
Control |
Sample type |
SRA |
|
|
Source name |
Lung
|
Organism |
Mus musculus |
Characteristics |
tissue: Lung cell type: Endothelial cells genotype: FAK Flox
|
Growth protocol |
FAK floxe and EC-FAK knockout mice were maintained following Institute Animal Care and Use guidelines.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Lungs harvested from FAK flox and EC-FAK knockout mice were subjected to single cell suspension and stained with anti-CD31 and CD45 antibodies. Endothelial cells (GFP+CD31+CD45-) were flow sorted and chromatin was extracted and processed for Tn5-mediated tagmentation and adapter incorporation, according to the manufacturer’s protocol (Nextera DNA sample preparation kit, Illumina®) at 37 °C for 30 min.
|
|
|
Library strategy |
ATAC-seq |
Library source |
genomic |
Library selection |
other |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
Flow sorted lung endothelial cells (CD31+CD45-) pooled from 5 mice.
|
Data processing |
Adapter trimming Gene Annotation Peak calling Feature counts Differential analysis Assembly: mm10
|
|
|
Submission date |
Jul 08, 2022 |
Last update date |
Jul 11, 2022 |
Contact name |
Md Zahid Akhter |
Organization name |
University of Illinois at Chicago
|
Department |
Pharmacology & Regenerative Medicine
|
Lab |
E-512
|
Street address |
835 S Wolcott Ave
|
City |
Chicago |
State/province |
IL |
ZIP/Postal code |
60612 |
Country |
USA |
|
|
Platform ID |
GPL19057 |
Series (1) |
GSE207789 |
FAK is required for suppressing aberrant nuclear mechanotransduction and DNA methylation to prevent vascular injury |
|
Relations |
BioSample |
SAMN29609332 |
SRA |
SRX16091618 |