|
Status |
Public on Jul 03, 2015 |
Title |
Multiple 8-oxoG challenge - 120 min |
Sample type |
SRA |
|
|
Source name |
Lung
|
Organism |
Mus musculus |
Characteristics |
strain: Balb/cJ tissue: Lung age: 8-week gender: female genotype: wild type treatment: multiple 8-oxoG challenge time: 120 min type of sample: Test
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted with RNeasy Mini Kit (Qiagen) followed by DNase I treatment. RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 1000 |
|
|
Description |
Sample 8
|
Data processing |
Base call conversion to sequence reads was done with Casava-1.8.2 software (Illumina). Sequence data were analyzed with the Bowtie 2 Splice junction mapping was performed with TopHat Assembly and estimation of abundance was perforemed with GFOLD Genome_build: mm10 Supplementary_files_format_and_content: Sample*RPKM.txt tab-delimited text file includes RPKM values for the Sample.
|
|
|
Submission date |
Jan 15, 2015 |
Last update date |
May 15, 2019 |
Contact name |
Istvan Boldogh |
Organization name |
UNIVERSITY OF TEXAS MEDICAL BRANCH
|
Department |
Microbiology & Immunology
|
Street address |
301 UNIVERSITY BLVD.
|
City |
Galveston |
State/province |
Texas |
ZIP/Postal code |
77555 |
Country |
USA |
|
|
Platform ID |
GPL15103 |
Series (1) |
GSE65031 |
8-Oxoguanine DNA glycosylase-1 DNA repair-signaling induces gene expression associated to airway remodeling |
|
Relations |
BioSample |
SAMN03286945 |
SRA |
SRX845539 |