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Sample GSM1018514 Query DataSets for GSM1018514
Status Public on Mar 27, 2013
Title Spleen S. suis 89-1591 6h Rep 4 (89-1591)
Sample type RNA
Source name Spleen S. suis 89-1591 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 89-1591 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)
GSE41520 Genome wide analysis of C57BL-6 mice infected with North-American strain (89-1591) of Streptococcus suis

Data table header descriptions
VALUE log2 robust spline normalized

Data table
ILMN_1212607 8.210409572
ILMN_1212612 8.037148583
ILMN_1212636 11.02451091
ILMN_1212637 9.16494143
ILMN_1212645 8.011372285
ILMN_1212648 9.062785965
ILMN_1212653 8.111208334
ILMN_1212672 9.112244506
ILMN_1212682 7.90643708
ILMN_1212692 8.193042162
ILMN_1212693 8.159914223
ILMN_1212695 9.256505388
ILMN_1212702 14.24699152
ILMN_1212703 8.354299076
ILMN_1212717 8.566573557
ILMN_1212720 8.383342544
ILMN_1212759 9.003508402
ILMN_1212791 8.341697514
ILMN_1212794 8.733365134
ILMN_1212828 8.058688065

Total number of rows: 13492

Table truncated, full table size 327 Kbytes.

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

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