NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1285951 Query DataSets for GSM1285951
Status Public on Dec 09, 2016
Title alveolar macrophage_untreated_3
Sample type RNA
 
Source name alveolar macrophage_untreated
Organism Mus musculus
Characteristics strain: C57BL6
treatment: none
cell type: alveolar macrophage
Treatment protocol Mice were treated with broad-spectrum antibiotics (ampicillin1 g ml−1, Mediatech; neomycin sulfate 1 g ml−1, Calbiochem; metronidazole 1 g ml−1, Fluka; and vancomycin 0.5 g ml−1, Sigma) in drinking water for 3 weeks.
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 9377360001_B
cell
Data processing NEQC normalized implemented in beadarray package.
 
Submission date Dec 10, 2013
Last update date Dec 09, 2016
Contact name Brendon Paul Scicluna
E-mail(s) b.scicluna@amsterdamumc.nl
Organization name Academic Medical Center
Street address Meibergdreef 9
City Amsterdam
ZIP/Postal code 1105AZ
Country Netherlands
 
Platform ID GPL6885
Series (1)
GSE53174 Genome-wide analysis of whole-lung and alveolar macrophages before and after gut microbiome depletion

Data table header descriptions
ID_REF
VALUE NEQC-normalized signal
detection Pval

Data table
ID_REF VALUE detection Pval
ILMN_1212607 4.639720264 0.441290323
ILMN_1212612 4.61302982 0.492903226
ILMN_1212619 5.283288505 0.08516129
ILMN_1212628 4.509272001 0.726451613
ILMN_1212632 4.712315099 0.356129032
ILMN_1212636 10.39672308 0
ILMN_1212637 9.060674467 0
ILMN_1212645 4.898164638 0.224516129
ILMN_1212648 8.191077822 0
ILMN_1212653 5.027444148 0.15483871
ILMN_1212672 7.590425733 0
ILMN_1212682 5.932908365 0
ILMN_1212683 4.593880986 0.541935484
ILMN_1212685 4.505077487 0.735483871
ILMN_1212692 4.51761178 0.709677419
ILMN_1212693 6.466382038 0
ILMN_1212695 7.125371156 0
ILMN_1212698 4.365546535 0.980645161
ILMN_1212702 14.68386931 0
ILMN_1212703 6.951335872 0

Total number of rows: 25681

Table truncated, full table size 819 Kbytes.




Supplementary data files not provided
Raw data are available on Series record
Processed data included within Sample table

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