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Sample GSM2500640 Query DataSets for GSM2500640
Status Public on Aug 23, 2017
Title injured_PHi_9hrs_R2
Sample type RNA
 
Source name gastrocnemius muscle
Organism Mus musculus
Characteristics tissue: gastrocnemius
drug: PHi
injury: yes
time: 9hr
animal: 2
limb: right
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 injured, PHi 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

Data table header descriptions
ID_REF
VALUE RMA signal (log2 scale)

Data table
ID_REF VALUE
100009600_at 6.544363669
100012_at 3.770755576
100017_at 7.108054083
100019_at 7.56371631
100034251_at 7.768510469
100034675_at 5.459278674
100034739_at 6.211969229
100034748_at 5.152032875
100036520_at 4.721662832
100036521_at 9.336044457
100036523_at 6.521952548
100036768_at 5.352204413
100037258_at 8.647558462
100037262_at 6.162985296
100037278_at 5.656190597
100038347_at 6.20131121
100038358_at 5.785569773
100038371_at 3.984870687
100038392_at 4.883895125
100038429_at 7.198179219

Total number of rows: 18139

Table truncated, full table size 378 Kbytes.




Supplementary file Size Download File type/resource
GSM2500640_269979.CEL.gz 3.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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