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Sample GSM1285963 Query DataSets for GSM1285963
Status Public on Dec 09, 2016
Title alveolar macrophage_treated_7
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 9377360004_F
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 4.524881841 0.724489796
ILMN_1212612 5.28211888 0.121173469
ILMN_1212619 4.749583793 0.369897959
ILMN_1212628 4.471771562 0.839285714
ILMN_1212632 4.761219124 0.359693878
ILMN_1212636 10.11002759 0
ILMN_1212637 9.193210353 0
ILMN_1212645 4.370510788 0.982142857
ILMN_1212648 8.441900728 0
ILMN_1212653 6.415680012 0
ILMN_1212672 8.074527257 0
ILMN_1212682 4.72560344 0.397959184
ILMN_1212683 4.573001325 0.628826531
ILMN_1212685 4.455390994 0.864795918
ILMN_1212692 4.584724705 0.610969388
ILMN_1212693 6.441077925 0
ILMN_1212695 6.432327782 0
ILMN_1212698 4.55814273 0.651785714
ILMN_1212702 14.68386931 0
ILMN_1212703 7.398387364 0

Total number of rows: 25681

Table truncated, full table size 831 Kbytes.




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

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