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Sample GSM512117 Query DataSets for GSM512117
Status Public on Oct 02, 2010
Title submandibular gland knockout rep3A
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 5.9 0.2844611
ILMN_3122480 5.74 0.7431078
ILMN_2599935 7.09 0
ILMN_2675543 5.98 0.1541353
ILMN_2686883 5.96 0.1654135
ILMN_2751818 5.79 0.5914787
ILMN_2728634 6.13 0.03634085
ILMN_3040515 6.18 0.02506266
ILMN_2711608 6.77 0
ILMN_1232875 5.93 0.2406015
ILMN_1258507 5.82 0.5062656
ILMN_2746142 5.79 0.6002506
ILMN_1252690 6.08 0.06140351
ILMN_2655499 5.84 0.4598998
ILMN_1252870 5.87 0.3671679
ILMN_1248179 5.92 0.2619048
ILMN_2649955 6.36 0
ILMN_2628708 5.85 0.4473684
ILMN_3024781 5.86 0.4010025
ILMN_2705628 5.96 0.1654135

Total number of rows: 25697

Table truncated, full table size 632 Kbytes.

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

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