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Sample GSM1412432 Query DataSets for GSM1412432
Status Public on Sep 08, 2014
Title leftventricle_sham-surgery_KO_rep1
Sample type RNA
 
Source name left ventricular myocardium, CaMKII delta/gamma DKO, sham
Organism Mus musculus
Characteristics strain/background: mixed (129/Sv and C57BL/6)
genotype/variation: CaMKII delta/gamma double-knockout (cre)
treatment: sham surgery
tissue: left ventricular myocardium
Treatment protocol Mice were anesthetized and subjected to myocardial ischemia/reperfusion injury. Briefly, after initiation of general anesthesia with Propofol 1% (0.002 ml/g bodyweight, retroorbital injection) and isoflurane anesthetic gas, the mice were intubated, ventilated with a rodent ventilator (MiniVent Type 845, Harvard Apparatus, Holliston, MA) and a left thoracotomy was performed. Anesthesia was maintained with isoflurane 2.0 %. The left anterior descending (LAD) coronary artery was ligated with an 8-0 suture, tied on top of a plastic tube, 0.9 mm in diameter, approximately 1 mm below the edge of the left atrial appendage. Successful ligation of the artery was confirmed by blanching of the left ventricular (LV) myocardium. After 60 minutes of ischemia, reperfusion was established by pulling out the occluding tube. 24 hours or 5 days post-surgery, mice were euthanized and hearts were harvested to obtain RNA.
Growth protocol Mixed mouse background strain: 129/Sv and C57BL/6 with CaMKII delta/gamma double KO.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from ventricular tissue or from cultured cardiomyocytes using TRIzol (Invitrogen, Germany). Total RNA was digested with DNase, and cDNA synthesis from 500 ng of RNA was carried out using a SuperScript first-strand synthesis system for RT-PCR (Invitrogen).
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
 
Hybridization protocol Hybridization (16h x 45°C) was processed according to the standard Affymetrix protocol.
Scan protocol Affymetrix GeneArray Scanner 3000.
Description Cre_Sham_10
sham = sham surgery
Data processing The data were analyzed with a commercial software called JMP Genomics, version 5, from SAS. Gene expression profiling was performed using arrays of mogene20st -type from Affymetrix. A Custom CDF Version 18 with Entrez-based gene definitions was used to annotate the arrays. The Raw fluorescence intensity values were normalized applying quantile normalization, RMA background correction and Medianpolish Probeset Summary.
 
Submission date Jun 13, 2014
Last update date Sep 08, 2014
Contact name Carsten Sticht
Organization name University Heidelberg
Department ZMF
Street address Theodor-Kutzer-Ufer
City Mannheim
ZIP/Postal code 68169
Country Germany
 
Platform ID GPL18802
Series (1)
GSE58486 CaM Kinase II mediates maladaptive post-infarct remodeling but not acute myocardial ischemia/reperfusion injury

Data table header descriptions
ID_REF
VALUE RMA signal intensity

Data table
ID_REF VALUE
100008567_at 7.681640625
100009600_at 3.994140625
100009609_at 3.673339844
100009614_at 3.947265625
100009664_at 3.982910156
100012_at 4.034179688
100017_at 7.724609375
100019_at 6.161132813
100033459_at 3.762695313
100034251_at 5.130859375
100034729_at 3.830566406
100034739_at 4.078125
100034748_at 4.512695313
100036518_at 3.823730469
100036520_at 4.4921875
100036521_at 4.682617188
100036523_at 5.561523438
100036537_at 4.631835938
100036768_at 4.448242188
100037258_at 8.349609375

Total number of rows: 24479

Table truncated, full table size 506 Kbytes.




Supplementary file Size Download File type/resource
GSM1412432_Lehmann_220414_10_Cre+_Sham_MoGene-2_0-st_.CEL.gz 8.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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