NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1285942 Query DataSets for GSM1285942
Status Public on Dec 09, 2016
Title whole lung_untreated_1
Sample type RNA
 
Source name whole lung_untreated
Organism Mus musculus
Characteristics strain: C57BL6
treatment: none
tissue: whole lung
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 9340020021_A
tissue
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 4.565446466 0.479166667
ILMN_1212612 7.02470046 0
ILMN_1212619 5.319968723 0
ILMN_1212628 4.358954601 0.989583333
ILMN_1212632 5.256983532 0
ILMN_1212636 9.922894485 0
ILMN_1212637 8.958991656 0
ILMN_1212645 5.331534243 0
ILMN_1212648 7.118110682 0
ILMN_1212653 9.193671256 0
ILMN_1212672 6.846804056 0
ILMN_1212682 4.991903279 0.029947917
ILMN_1212683 4.605411565 0.390625
ILMN_1212685 4.725012752 0.197916667
ILMN_1212692 6.857878919 0
ILMN_1212693 7.815478572 0
ILMN_1212695 4.70674878 0.217447917
ILMN_1212698 4.429780702 0.907552083
ILMN_1212702 14.44510045 0
ILMN_1212703 6.313864063 0

Total number of rows: 25681

Table truncated, full table size 787 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