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Sample GSM1018526 Query DataSets for GSM1018526
Status Public on Mar 27, 2013
Title Spleen Mock infected 6h Rep 4 (SC84)
Sample type RNA
Source name Spleen Mock infected 6h
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: Spleen
gender: Female
Treatment protocol Mice were infected for 6h with 5 x 10^7 CFU of Streptococcus suis strain SC84 or mock-infected with bacterial growth medium (THB).
Growth protocol Bacterial culture was prepared by transferring 10 μl of 1/1,000 dilutions of 8-h cultures into 30 ml of THB, which was incubated for 16 h at 37°C without agitation. Stationary-phase bacteria were washed twice in PBS (pH 7.3). The bacterial pellet was then resuspended and adjusted to a concentration of 5 × 10^8 c.f.u. ml-1.
Extracted molecule total RNA
Extraction protocol RNA was homogenized from RNAlater-stabilized spleen tissus, extracted and DNAse I treated using QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
Label Biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description Replicate 4
Data processing The data were first raw-filtered in order to identify and remove probesets that were not detected and then normalised using robust spline normalization with FlexArray v1.6
Submission date Oct 11, 2012
Last update date Mar 27, 2013
Contact name Claude Lachance
Organization name Bio-Rad
Street address 1329 Meyerside Drive
City Mississauga
State/province Ontario
ZIP/Postal code L5T 1C9
Country Canada
Platform ID GPL6885
Series (1)
GSE41522 Genome wide analysis of C57BL-6 mice infected with Chinese strain (SC84) of Streptococcus suis
Reanalysis of GSM1018510

Data table header descriptions
VALUE log2 robust spline normalized

Data table
ILMN_1212607 7.961421459
ILMN_1212612 8.127450421
ILMN_1212636 10.93730888
ILMN_1212637 9.100973075
ILMN_1212645 8.388156754
ILMN_1212648 9.255856623
ILMN_1212653 8.552059592
ILMN_1212672 9.183013875
ILMN_1212692 8.065558126
ILMN_1212693 9.182429217
ILMN_1212695 8.17085803
ILMN_1212702 14.93936386
ILMN_1212703 8.38183675
ILMN_1212717 8.112692833
ILMN_1212720 8.453587204
ILMN_1212759 8.862500548
ILMN_1212791 8.142380668
ILMN_1212794 9.32270178
ILMN_1212836 8.940530599
ILMN_1212894 9.072639818

Total number of rows: 13325

Table truncated, full table size 323 Kbytes.

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

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