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Sample GSM6318306 Query DataSets for GSM6318306
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
BioSample SAMN29609332
SRA SRX16091618

Supplementary file Size Download File type/resource
GSM6318306_Control_S4_histone_peaks.xlsx 6.4 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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