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Sample GSM512114 Query DataSets for GSM512114
Status Public on Oct 02, 2010
Title submandibular gland knockout rep1A
Sample type RNA
Source name mouse submandibular gland
Organism Mus musculus
Characteristics strain: C57BL/6
gender: female
age: 2 months
tissue: submandibular gland
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 5.91 0.3082707
ILMN_3122480 5.76 0.7005013
ILMN_2599935 7.03 0.001253133
ILMN_2675543 5.89 0.3571429
ILMN_2686883 5.81 0.5614035
ILMN_2751818 5.9 0.3245614
ILMN_2728634 6.18 0.04761905
ILMN_3040515 6.25 0.02882206
ILMN_2711608 6.82 0.001253133
ILMN_1232875 5.88 0.3859649
ILMN_1258507 5.87 0.3984962
ILMN_2746142 5.71 0.8345864
ILMN_1252690 6 0.1754386
ILMN_2655499 5.93 0.2819549
ILMN_1252870 6.11 0.08145364
ILMN_1248179 5.8 0.5952381
ILMN_2649955 6.5 0.003759399
ILMN_2628708 5.78 0.6541353
ILMN_3024781 5.83 0.4899749
ILMN_2705628 5.94 0.2669173

Total number of rows: 25697

Table truncated, full table size 664 Kbytes.

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

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