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Sample GSM1285951 Query DataSets for GSM1285951
Status Public on Dec 09, 2016
Title alveolar macrophage_untreated_3
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 9377360001_B
Data processing NEQC normalized implemented in beadarray package.
Submission date Dec 10, 2013
Last update date Dec 09, 2016
Contact name Brendon Paul Scicluna
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
VALUE NEQC-normalized signal
detection Pval

Data table
ID_REF VALUE detection Pval
ILMN_1212607 4.639720264 0.441290323
ILMN_1212612 4.61302982 0.492903226
ILMN_1212619 5.283288505 0.08516129
ILMN_1212628 4.509272001 0.726451613
ILMN_1212632 4.712315099 0.356129032
ILMN_1212636 10.39672308 0
ILMN_1212637 9.060674467 0
ILMN_1212645 4.898164638 0.224516129
ILMN_1212648 8.191077822 0
ILMN_1212653 5.027444148 0.15483871
ILMN_1212672 7.590425733 0
ILMN_1212682 5.932908365 0
ILMN_1212683 4.593880986 0.541935484
ILMN_1212685 4.505077487 0.735483871
ILMN_1212692 4.51761178 0.709677419
ILMN_1212693 6.466382038 0
ILMN_1212695 7.125371156 0
ILMN_1212698 4.365546535 0.980645161
ILMN_1212702 14.68386931 0
ILMN_1212703 6.951335872 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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