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Sample GSM512126 Query DataSets for GSM512126
Status Public on Oct 02, 2010
Title duodenum knockout rep1C
Sample type RNA
Source name mouse duodenum
Organism Mus musculus
Characteristics strain: C57BL/6
gender: female
age: 2 months
tissue: duodenum
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 6.32 0.07894737
ILMN_3122480 6.02 0.3984962
ILMN_2599935 8.23 0
ILMN_2675543 5.91 0.6516291
ILMN_2686883 6.23 0.131579
ILMN_2751818 6.06 0.3333333
ILMN_2728634 6.87 0.006265664
ILMN_3040515 6.21 0.1390978
ILMN_2711608 7.18 0.001253133
ILMN_1232875 6.14 0.2042606
ILMN_1258507 5.75 0.9010025
ILMN_2746142 5.72 0.9423559
ILMN_1252690 6.44 0.03759398
ILMN_2655499 5.92 0.6353384
ILMN_1252870 6.16 0.1917293
ILMN_1248179 6.29 0.09774436
ILMN_2649955 7.22 0.001253133
ILMN_2628708 7.04 0.003759399
ILMN_3024781 5.99 0.4724311
ILMN_2705628 5.81 0.8370928

Total number of rows: 25697

Table truncated, full table size 642 Kbytes.

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

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