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Sample GSM1470342 Query DataSets for GSM1470342
Status Public on Mar 26, 2015
Title IFNg rep1
Sample type RNA
 
Source name BMDM_IFNg
Organism Mus musculus
Characteristics strain: Specific pathogen-free C57Bl/6
cell type: bone marrow-derived macrophage (BMDM)
stimulated: IFN╬│ for 18hrs
Treatment protocol BMDMs were stimulated with 10ng/ul ultrapure Ecoli lipopolysaccharide (LPS).
Growth protocol Specific pathogen-free C57Bl/6 mice were purchased from Harlan Sprague-Dawley (Horst, the Netherlands) and housed in a controlled environemt on 12h/12h light/dark cycles.
Extracted molecule total RNA
Extraction protocol Rneasy kit procedures including DNAse digestion.
Label biotin
Label protocol standard biotin Ambion labeling - Illumina
 
Hybridization protocol standard Illumina protocol
Scan protocol standard Illumina protocol
Description 7165861071_D
Data processing Estimated background was subtracted from the foreground for each bead. For replicate beads, outliers greater than 3 median absolute deviations from the median were removed and the average signal was calculated for the remaining intensities. For each probe a detection score was calculated by comparing its average signal with the summarized values for the negative control probes. Non-expressed probes were removed yielding 15978 expressed probes (detection p < 0.05). Expressed probe data were neqc normalized.
 
Submission date Aug 11, 2014
Last update date Mar 26, 2015
Contact name Brendon Scicluna
E-mail(s) brendon.scicluna@um.edu.mt
Organization name University of Malta
Street address Msida campus
City Msida
ZIP/Postal code MSD2020
Country Malta
 
Platform ID GPL6885
Series (1)
GSE60290 Genome-wide analysis of bone marrow-derived macrophage (BMDM) priming by Ifng and Ifnb.

Data table header descriptions
ID_REF
VALUE NEQC normalized
detection Pval

Data table
ID_REF VALUE detection Pval
ILMN_1212607 6.033185438 0
ILMN_1212619 4.994800143 0.220492866
ILMN_1212632 5.3921806 0.032425422
ILMN_1212636 11.5563087 0
ILMN_1212637 8.783618581 0
ILMN_1212648 7.217857237 0
ILMN_1212653 5.656966944 0
ILMN_1212672 5.461342682 0.015564202
ILMN_1212682 5.210526731 0.088197147
ILMN_1212685 4.712677463 0.701686122
ILMN_1212692 5.127197916 0.125810636
ILMN_1212693 6.057406359 0
ILMN_1212695 5.296442091 0.060959792
ILMN_1212703 6.744214054 0
ILMN_1212717 8.223460128 0
ILMN_1212720 6.798417174 0
ILMN_1212752 6.011639871 0
ILMN_1212759 7.631414072 0
ILMN_1212791 5.603290832 0
ILMN_1212794 7.292262026 0

Total number of rows: 15978

Table truncated, full table size 474 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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