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Sample GSM1470344 Query DataSets for GSM1470344
Status Public on Mar 26, 2015
Title IFNg rep3
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_F
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
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
VALUE NEQC normalized
detection Pval

Data table
ID_REF VALUE detection Pval
ILMN_1212607 5.659151101 0
ILMN_1212619 4.940287156 0.279161206
ILMN_1212632 4.839964901 0.439056356
ILMN_1212636 11.10671815 0
ILMN_1212637 8.933737425 0
ILMN_1212648 7.808658156 0
ILMN_1212653 6.026761366 0
ILMN_1212672 5.48688318 0.015727392
ILMN_1212682 5.317004038 0.043250328
ILMN_1212685 4.913816949 0.319790301
ILMN_1212692 5.481351934 0.015727392
ILMN_1212693 6.257441312 0
ILMN_1212695 5.341021308 0.036697248
ILMN_1212703 6.4380715 0
ILMN_1212717 7.948574372 0
ILMN_1212720 7.159194976 0
ILMN_1212752 5.5760517 0.002621232
ILMN_1212759 7.732439132 0
ILMN_1212791 6.332083922 0
ILMN_1212794 7.456834636 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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