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Sample GSM673371 Query DataSets for GSM673371
Status Public on Dec 01, 2012
Title heart_Scn5a-1798insD/+ mutant [4700266023_C]
Sample type RNA
 
Source name left ventricle_free-wall
Organism Mus musculus
Characteristics tissue: cardiac
background strain: F2-(129P2/OlaHsdxFVBN/J)
genotype: Scn5a1798insD/+
Treatment protocol None
Growth protocol All mice were supplied with the same SDS diet (SDS CRM(E) PL; Special Diets Services, UK) and water ad libitum and maintained on a 12-hour light/dark cycle in a temperature and humidity controlled environment.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the QIAGEN RNeasy mini kit. Total RNA yield and purity (260nm:280nm) were determined spectrophotometrically. The integrity (RIN>9.0) of the re-suspended total RNA was determined using the RNA Nano Chip Kit on the Bioanalyzer 2100 and the 2100 Expert software (Agilent).
Label biotin
Label protocol Synthesis, amplification and purification of anti-sense RNA was performed using the Illumina TotalPrep RNA Amplification Kit (Ambion) following the Illumina Sentrix Array Matrix expression protocol.
 
Hybridization protocol A total of 750 ng biotinylated cRNA was hybridized in accordance with standard Illumina protocols.
Scan protocol Standard Illumina scan protocol
Description F2 hybrid
Data processing Illumina’s default pre-processing steps were performed using beadarray. A variance-stabilization transformation was applied to the summarized data and the resulting data was quantile normalized.
 
Submission date Feb 11, 2011
Last update date Dec 01, 2012
Contact name Brendon Paul Scicluna
E-mail(s) b.scicluna@amsterdamumc.nl
Organization name Academic Medical Center
Street address Meibergdreef 9
City Amsterdam
ZIP/Postal code 1105AZ
Country Netherlands
 
Platform ID GPL6885
Series (1)
GSE27236 Gene expression analysis of cardiac left-ventricle tissue from hybrid mice harboring the Scn5a-1798insD/+ mutation

Data table header descriptions
ID_REF
VALUE VST-QUANTILE normalized
Detection Pval 4700266023_C

Data table
ID_REF VALUE Detection Pval 4700266023_C
ILMN_1250052 8.084665208 0
ILMN_3122480 7.852272 0.325032765
ILMN_2599935 8.827571378 0
ILMN_2675543 7.826519128 0.546526868
ILMN_2686883 7.797571495 0.833551769
ILMN_2751818 7.816738232 0.659239843
ILMN_2728634 7.933945068 0.043250328
ILMN_3040515 7.858190123 0.280471822
ILMN_2711608 7.841626196 0.406290957
ILMN_1232875 7.831222437 0.500655308
ILMN_1258507 7.823159683 0.575360419
ILMN_2746142 7.796075544 0.847968545
ILMN_1252690 7.840749833 0.412844037
ILMN_2655499 7.804855496 0.771952818
ILMN_1252870 7.897031245 0.125819135
ILMN_1248179 7.826297226 0.546526868
ILMN_2649955 8.387388495 0
ILMN_2628708 7.815702494 0.667103539
ILMN_3024781 7.776697955 0.958060288
ILMN_2705628 7.835119321 0.47051114

Total number of rows: 25697

Table truncated, full table size 828 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
Raw data are available on Series record

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