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Sample GSM5025540 Query DataSets for GSM5025540
Status Public on Dec 01, 2021
Title mouse_Sham+Saline_2
Sample type RNA
 
Source name muscle
Organism Mus musculus
Characteristics treatment: Sham+Saline
time: 2 days post surgery
gender: Female
tissue: muscle
Treatment protocol Mice were divided in 4 groups that underwent the following surgeries 1) SCI between vertebrae T12-13+ intramuscular CDTX; 2) SCI+ intramuscular Saline; 3) Sham surgery + intramuscular CDTX; 4) Shamsurgery + Intramuscular saline.
Growth protocol N/A
Extracted molecule total RNA
Extraction protocol Whole hindlinb muscle were sampled 2 days post-surgery and homogenized in 4 ml of Trizol (Invitrogen) with TissueRuptorII (Qiagen Hilden) or IKA T10 basic homogenizer on ice for 30 seconds for 3 times with 10 second intervals followed by incubation at RT for 30 minutes. Tissue debris were removed by centrifuging at 12,000xg and supernatants were mixed with 1/5 volume of chloroform. After spinning down at 12,000xg, 4°C for 15 mins, aqueous phases containing RNA were transferred to fresh tubes for RNA precipitation with isopropanol. The RNA pellets were further washed in 75% ethanol, air-dried and dissolved in RNAse/DNase free water.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol BeadChips and read on a BeadStation 500 System using Beadscan software Version 3.5.31 (Illumina)
Description 9257636019_F
Data processing Microarray data were analyzed by Illumina Genomestudio software (v2011.1), Gene Expression module (V1.9.0) average normalization algorithms with background subtraction followed by Illumina custom differential analysis algorithms.
 
Submission date Jan 19, 2021
Last update date Dec 01, 2021
Contact name Jean-Pierre Levesque
E-mail(s) jp.levesque@mater.uq.edu.au
Organization name Mater Research Institute-University of Queensland
Department Mater Research Institute
Lab Levesque lab
Street address 37 Kent St
City Brisbane
State/province Queensland
ZIP/Postal code 4102
Country Australia
 
Platform ID GPL6885
Series (1)
GSE165062 Gene expression microarray analysis of whole mouse hamstring muscles to identify genes promoting the devlopment of neurogenic heterotopic ossifications following spinal cord injury

Supplementary file Size Download File type/resource
GSM5025540_9257636019_F_Grn.idat.gz 929.6 Kb (ftp)(http) IDAT
Processed data included within Sample table
Processed data are available on Series record

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