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Sample GSM1285943 Query DataSets for GSM1285943
Status Public on Dec 09, 2016
Title alveolar macrophage_untreated_1
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 9340020021_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 4.456045517 0.860465116
ILMN_1212612 4.444597803 0.877260982
ILMN_1212619 5.487615491 0.036175711
ILMN_1212628 4.523671932 0.715762274
ILMN_1212632 4.69237999 0.377260982
ILMN_1212636 10.60230636 0
ILMN_1212637 8.998669589 0
ILMN_1212645 5.212328279 0.082687339
ILMN_1212648 8.473663287 0
ILMN_1212653 5.220875376 0.082687339
ILMN_1212672 7.943118347 0
ILMN_1212682 5.097165176 0.117571059
ILMN_1212683 4.436661925 0.888888889
ILMN_1212685 4.682405416 0.388888889
ILMN_1212692 4.712468562 0.348837209
ILMN_1212693 7.087272979 0
ILMN_1212695 6.543987755 0
ILMN_1212698 4.562318682 0.61369509
ILMN_1212702 14.68386931 0
ILMN_1212703 7.090682355 0

Total number of rows: 25681

Table truncated, full table size 821 Kbytes.




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

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