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Sample GSM2500646 Query DataSets for GSM2500646
Status Public on Aug 23, 2017
Title injured_vehicle_9hrs_R8
Sample type RNA
 
Source name gastrocnemius muscle
Organism Mus musculus
Characteristics tissue: gastrocnemius
drug: vehicle
injury: yes
time: 9hr
animal: 8
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, 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

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

Data table
ID_REF VALUE
100009600_at 6.400640039
100012_at 3.532025634
100017_at 7.221686839
100019_at 7.505757256
100034251_at 8.000004657
100034675_at 5.554169525
100034739_at 5.882163865
100034748_at 4.914569598
100036520_at 4.543931913
100036521_at 9.22484056
100036523_at 6.587859667
100036768_at 5.386158846
100037258_at 8.602041008
100037262_at 5.847621575
100037278_at 5.785609541
100038347_at 6.206775115
100038358_at 5.558880504
100038371_at 3.698906766
100038392_at 4.897825674
100038429_at 6.831424583

Total number of rows: 18139

Table truncated, full table size 378 Kbytes.




Supplementary file Size Download File type/resource
GSM2500646_269985.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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