NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM673406 Query DataSets for GSM673406
Status Public on Dec 01, 2012
Title heart_Scn5a-1798insD/+ mutant [4700266035_F]
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 4700266035_F

Data table
ID_REF VALUE Detection Pval 4700266035_F
ILMN_1250052 7.95785217 0.017060367
ILMN_3122480 7.813633892 0.686351706
ILMN_2599935 8.694434026 0
ILMN_2675543 7.825539609 0.565616798
ILMN_2686883 7.870536082 0.220472441
ILMN_2751818 7.80768806 0.744094488
ILMN_2728634 8.000786788 0
ILMN_3040515 7.822368526 0.591863517
ILMN_2711608 7.797193396 0.846456693
ILMN_1232875 7.777097308 0.954068241
ILMN_1258507 7.77128732 0.971128609
ILMN_2746142 7.835115958 0.471128609
ILMN_1252690 7.946623076 0.035433071
ILMN_2655499 7.853241656 0.341207349
ILMN_1252870 7.833161029 0.492125984
ILMN_1248179 7.81343993 0.687664042
ILMN_2649955 7.997501178 0
ILMN_2628708 7.80998647 0.717847769
ILMN_3024781 7.773856821 0.964566929
ILMN_2705628 7.851315511 0.359580052

Total number of rows: 25697

Table truncated, full table size 832 Kbytes.




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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap