NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1285957 Query DataSets for GSM1285957
Status Public on Dec 09, 2016
Title alveolar macrophage_treated_4
Sample type RNA
 
Source name alveolar macrophage_treated
Organism Mus musculus
Characteristics strain: C57BL6
treatment: antibiotic
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_H
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 4.754716258 0.325611326
ILMN_1212612 4.585196982 0.554697555
ILMN_1212619 5.267775308 0.066924067
ILMN_1212628 4.407181811 0.953667954
ILMN_1212632 4.696145725 0.386100386
ILMN_1212636 10.47312374 0
ILMN_1212637 9.307815268 0
ILMN_1212645 4.592729918 0.536679537
ILMN_1212648 8.475218391 0
ILMN_1212653 5.995813658 0
ILMN_1212672 7.795478754 0
ILMN_1212682 5.658453125 0.015444015
ILMN_1212683 4.618865336 0.489060489
ILMN_1212685 4.612948343 0.501930502
ILMN_1212692 5.237232645 0.073359073
ILMN_1212693 6.712444834 0
ILMN_1212695 6.841354914 0
ILMN_1212698 4.468202918 0.83011583
ILMN_1212702 14.13458282 0
ILMN_1212703 7.295773197 0

Total number of rows: 25681

Table truncated, full table size 823 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