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Sample GSM453466 Query DataSets for GSM453466
Status Public on Dec 18, 2009
Title Colon_PostNatalDay3_rep4
Sample type RNA
 
Source name colon, day 3
Organism Rattus norvegicus
Characteristics strain: Sprague Dawley
age: postnatal day 3
tissue: colon
Treatment protocol tissue was snap frozen in liquid nitrogen and stored at -80°C.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted and purified with the RNAdvance tissue kit (Agencourt) extraction. RNA was quantified with the RiboGreen RNA Quantification Kit (Molecular Probes) and monitored for quality on an Agilent 2100 Bioanalyser.
Label Cy3
Label protocol Biotinylated cRNA was synthesized, labelled and purified according to the Illumina TotalPrep RNA amplification protocol.
 
Hybridization protocol Standard Illumina hybridization protocol.
Scan protocol Standard Illumina scanning protocol.
Description replicate 4
Data processing Quality control of the data was performed on all samples with a Pearson correlation matrix and a Principal Component Analysis. The data were normalised using quantile normalisation with IlluminaGUI
 
Submission date Sep 16, 2009
Last update date Dec 18, 2009
Contact name Peter I Duncan
E-mail(s) peter.duncan@rdls.nestle.com
Organization name Nestlé Research Center
Department Nutrition & Health
Lab Digestive Health
Street address Vers-chez-les-Blanc
City Lausanne
ZIP/Postal code 1026
Country Switzerland
 
Platform ID GPL6101
Series (1)
GSE18133 Genome-wide analysis of gene expression in colon and brain during the suckling period.

Data table header descriptions
ID_REF
VALUE quantile normalized
C_34.Detection Pval

Data table
ID_REF VALUE C_34.Detection Pval
ILMN_1348778 409.9722 0
ILMN_1348782 421.3742 0
ILMN_1348783 667.3243 0
ILMN_1348784 57.52745 0.369697
ILMN_1348786 66.74392 0.08969697
ILMN_1348787 47.20335 0.9054545
ILMN_1348789 57.3219 0.3745455
ILMN_1348790 109.8715 0.002424242
ILMN_1348791 49.52583 0.8157576
ILMN_1348792 41.26609 0.9963636
ILMN_1348793 66.25388 0.09818182
ILMN_1348794 102.3325 0.003636364
ILMN_1348795 46.86717 0.9163637
ILMN_1348797 60.46724 0.2484848
ILMN_1348798 54.36483 0.539394
ILMN_1348799 144.4395 0.002424242
ILMN_1348800 641.9969 0
ILMN_1348802 49.82935 0.7975758
ILMN_1348804 110.5094 0.002424242
ILMN_1348806 53.87906 0.5636364

Total number of rows: 22523

Table truncated, full table size 663 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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