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Sample GSM512120 Query DataSets for GSM512120
Status Public on Oct 02, 2010
Title stomach knockout rep1B
Sample type RNA
Source name mouse stomach
Organism Mus musculus
Characteristics strain: C57BL/6
gender: female
age: 2 months
tissue: stomach
genotype: Car6 -/-
Extracted molecule total RNA
Extraction protocol Total RNAs were purified using the RNeasy Mini Kit (Qiagen, Basel, Switzerland). On-column DNase digestion was performed during RNA purification process. RNA concentrations, A260/280, and A260/230 ratios were determined using the ND-1000 spectrophotometer (Nanodrop Technologies, Wilmington, USA).
Label Biotin
Label protocol Using Illumina TotalPrep RNA Amplification kit (#IL1791, Ambion), following the manufacturer's protocol. Input amount: 300ng of total RNA. Incubation of labeling reaction: 16h.
Hybridization protocol 750 ng of each sample was hybridized to Illumina´s Sentrix® MouseRef-8 v2 BeadChip, at 58 degree for 18 h
Scan protocol Chips were scanned with Illumina BeadArray Reader v. (Factor=1.52, PMT=552, Filter=100%)
Description n/a
Data processing Array data were normalized with Chipster version 1.3.0 using the quantile normalization method
Submission date Feb 19, 2010
Last update date Oct 02, 2010
Contact name Pei-wen Pan
Organization name Institute of Medical Technology, University of Tampere
Street address Biokatu 6
City Tampere
ZIP/Postal code 33520
Country Finland
Platform ID GPL6885
Series (1)
GSE20423 Gene expression profiling in the submandibular gland, stomach, and duodenum of CAVI-deficient mice

Data table header descriptions
VALUE quantile normalization
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_1250052 6.33 0.05012531
ILMN_3122480 5.97 0.481203
ILMN_2599935 8.26 0
ILMN_2675543 6.11 0.2330827
ILMN_2686883 6.41 0.02756892
ILMN_2751818 6.09 0.2631579
ILMN_2728634 7.11 0
ILMN_3040515 6.36 0.03884712
ILMN_2711608 6.14 0.197995
ILMN_1232875 5.9 0.6365915
ILMN_1258507 5.8 0.8558897
ILMN_2746142 5.95 0.5213032
ILMN_1252690 6.51 0.01629073
ILMN_2655499 6.01 0.3796993
ILMN_1252870 6.2 0.1353384
ILMN_1248179 6.44 0.02255639
ILMN_2649955 7.73 0
ILMN_2628708 6.66 0.0112782
ILMN_3024781 6.05 0.3032582
ILMN_2705628 6.01 0.3796993

Total number of rows: 25697

Table truncated, full table size 636 Kbytes.

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

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