|
| Status |
Public on Jul 03, 2015 |
| Title |
Multiple 8-oxoG challenge - 60 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: 60 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 7
|
| 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 |
SAMN03286943 |
| SRA |
SRX845538 |
