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Sample GSM1470338 Query DataSets for GSM1470338
Status Public on Mar 26, 2015
Title IFNb_LPS rep2
Sample type RNA
 
Source name BMDM_IFNb_LPS
Organism Mus musculus
Characteristics strain: Specific pathogen-free C57Bl/6
cell type: bone marrow-derived macrophage (BMDM)
stimulated: IFNb for 18hrs and LPS for 6hrs
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 7165861070_H
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 6.510436817 0
ILMN_1212619 4.708442744 0.725490196
ILMN_1212632 4.92498972 0.321568627
ILMN_1212636 11.06804844 0
ILMN_1212637 8.581226976 0
ILMN_1212648 7.849955847 0
ILMN_1212653 5.028820339 0.230065359
ILMN_1212672 5.388740966 0.049673203
ILMN_1212682 5.824240267 0.005228758
ILMN_1212685 4.793376481 0.550326797
ILMN_1212692 4.714589876 0.709803922
ILMN_1212693 5.140424338 0.14379085
ILMN_1212695 10.73482301 0
ILMN_1212703 6.418411301 0
ILMN_1212717 7.892241761 0
ILMN_1212720 6.654902119 0
ILMN_1212752 4.763994086 0.597385621
ILMN_1212759 8.139850675 0
ILMN_1212791 6.409215072 0
ILMN_1212794 5.643226964 0.015686275

Total number of rows: 15978

Table truncated, full table size 484 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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