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Sample GSM1116750 Query DataSets for GSM1116750
Status Public on Jun 01, 2013
Title MGK094-1
Sample type RNA
 
Source name C57BL/6 TLR2-KO spleen infected with Chinese strain (SC84) of Streptococcus suis
Organism Mus musculus
Characteristics strain: C57BL/6 TLR2-KO
tissue: Spleen
gender: Female
Treatment protocol Mice (C57BL/6 and C57BL/6 TLR2-KO) were infected for 6h with 5 x 10^7 CFU of Streptococcus suis strain SC84.
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 Spleen S. suis SC84 6h Rep 1
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 Apr 08, 2013
Last update date Jun 01, 2013
Contact name Claude Lachance
E-mail(s) claude.lachance@mail.mcgill.ca
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 (2)
GSE45862 Genome wide analysis of C57BL-6 mice and C57BL/6 TLR2-KO mice infected with Chinese strain (SC84) of Streptococcus suis
GSE45863 Toll-like Receptor 2-independent Host Innate Immune Response Against an Epidemic Strain of Streptococcus suis that Causes a Toxic Shock-Like Syndrome in Humans

Data table header descriptions
ID_REF
VALUE robust spline normalized

Data table
ID_REF VALUE
ILMN_2896528 10.27503155
ILMN_2721178 7.756879821
ILMN_3092673 10.65388139
ILMN_3033922 8.119275573
ILMN_2808939 8.41507562
ILMN_2634564 7.648704744
ILMN_2734484 4.415237443
ILMN_2952292 3.76892749
ILMN_1213681 6.274429191
ILMN_2891688 10.33643043
ILMN_2637698 9.899644178
ILMN_2674228 7.933890262
ILMN_2601546 2.337779868
ILMN_2658619 9.91447727
ILMN_1226653 5.949345931
ILMN_2727437 6.813818759
ILMN_2628021 9.655932861
ILMN_2793281 8.732222426
ILMN_1234456 3.068129778
ILMN_2611352 8.597444625

Total number of rows: 13327

Table truncated, full table size 324 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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