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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
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 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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