NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1470333 Query DataSets for GSM1470333
Status Public on Mar 26, 2015
Title Ctrl_LPS rep2
Sample type RNA
 
Source name BMDM_Ctrl_LPS
Organism Mus musculus
Characteristics strain: Specific pathogen-free C57Bl/6
cell type: bone marrow-derived macrophage (BMDM)
stimulated: 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_B
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 6.252199532 0
ILMN_1212619 5.600756136 0.018252934
ILMN_1212632 4.766572298 0.590612777
ILMN_1212636 11.21800407 0
ILMN_1212637 8.544470947 0
ILMN_1212648 7.640172483 0
ILMN_1212653 4.856855333 0.41851369
ILMN_1212672 5.317807909 0.078226858
ILMN_1212682 5.263092357 0.092568449
ILMN_1212685 4.885502041 0.37809648
ILMN_1212692 4.932031872 0.312907432
ILMN_1212693 4.717004295 0.71577575
ILMN_1212695 11.16549797 0
ILMN_1212703 6.814137581 0
ILMN_1212717 8.561370838 0
ILMN_1212720 6.867300554 0
ILMN_1212752 5.054969072 0.196870926
ILMN_1212759 8.313446983 0
ILMN_1212791 5.536442541 0.031290743
ILMN_1212794 5.053313927 0.196870926

Total number of rows: 15978

Table truncated, full table size 481 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap