|
| Status |
Public on Aug 23, 2017 |
| Title |
uninjured_vehicle_9hrs_L4 |
| Sample type |
RNA |
| |
|
| Source name |
gastrocnemius muscle
|
| Organism |
Mus musculus |
| Characteristics |
tissue: gastrocnemius
drug: vehicle
injury: no
time: 9hr
animal: 4
limb: left
strain: C57Bl6/NJ
|
| Treatment protocol |
Normal C57Bl6/NJ mice were housed individually (12hr:12hr day:night cycle) in a temperature- and humidity-controlled environment and fed standard chow and water ad libitum. Right hind limbs were injured while left hind limbs were used as control. Animals were treated either with PHI or vehicle.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mouse gastrocnemius samples were collected and flash frozen in liquid nitrogen then stored at -80oC. For RNA isolation, ~100mg samples were used in 1ml Trizol and isolation was done according to the manufacturers protocol (Ambion Cat #15596-068). Purified RNA went through Qiagen RNA clean up kit (Cat #74204) and eluted in 50ul elution buffer.
|
| Label |
biotin
|
| Label protocol |
RNA samples were amplified, labeled, hybridized to Affymetrix HG-U133 plus 2.0 GeneChip® microarrays, and scanned using standard protocols (Q2 Solutions, Inc., Durham, North Carolina, U.S.A.) to generate raw data files (CEL files).
|
| |
|
| Hybridization protocol |
RNA samples were amplified, labeled, hybridized to Affymetrix HG-U133 plus 2.0 GeneChip® microarrays, and scanned using standard protocols (Q2 Solutions, Inc., Durham, North Carolina, U.S.A.) to generate raw data files (CEL files).
|
| Scan protocol |
RNA samples were amplified, labeled, hybridized to Affymetrix HG-U133 plus 2.0 GeneChip® microarrays, and scanned using standard protocols (Q2 Solutions, Inc., Durham, North Carolina, U.S.A.) to generate raw data files (CEL files).
|
| Description |
Gene expression data from uninjured, vehicle treated gastrocnemius muscle tissue collected after 9 hrs
|
| Data processing |
Raw data files (CEL files) were analyzed using a battery of data quality checks and samples failing these checks were removed from subsequent analyses. Raw data was then pre-processed using the RMA (Robust Multi-chip Average) pipeline in combination with the most current re-annotated probeset definitions.
|
| |
|
| Submission date |
Feb 23, 2017 |
| Last update date |
Aug 23, 2017 |
| Contact name |
Johannes M Freudenberg |
| Organization name |
GlaxoSmithKline
|
| Department |
Human Genetics
|
| Lab |
Computational Biology
|
| Street address |
1250 S Collegeville Rd
|
| City |
Collegeville |
| State/province |
Pennsylvania |
| ZIP/Postal code |
19426 |
| Country |
USA |
| |
|
| Platform ID |
GPL23097 |
| Series (1) |
| GSE95244 |
HIF Prolyl Hydroxylase Inhibition Protects Skeletal Muscle from Contraction-Induced Injury |
|
