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Sample GSM1285944 Query DataSets for GSM1285944
Status Public on Dec 09, 2016
Title alveolar macrophage_untreated_2
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_C
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 5.483265028 0.034793814
ILMN_1212612 4.593153391 0.528350515
ILMN_1212619 5.508829035 0.030927835
ILMN_1212628 4.467086613 0.833762887
ILMN_1212632 4.709871978 0.349226804
ILMN_1212636 10.52409567 0
ILMN_1212637 8.922268326 0
ILMN_1212645 4.624849412 0.484536082
ILMN_1212648 8.241581958 0
ILMN_1212653 5.808238912 0.00257732
ILMN_1212672 7.994663663 0
ILMN_1212682 5.925470958 0
ILMN_1212683 4.466751283 0.833762887
ILMN_1212685 4.561117398 0.612113402
ILMN_1212692 4.510154938 0.737113402
ILMN_1212693 6.809235444 0
ILMN_1212695 6.554531241 0
ILMN_1212698 4.409095698 0.93685567
ILMN_1212702 14.68386931 0
ILMN_1212703 6.721376104 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

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