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Sample GSM1285953 Query DataSets for GSM1285953
Status Public on Dec 09, 2016
Title alveolar macrophage_treated_3
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_D
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 4.508562277 0.746819338
ILMN_1212612 4.713268395 0.388040712
ILMN_1212619 5.413400737 0.067430025
ILMN_1212628 4.613055254 0.534351145
ILMN_1212632 4.925838654 0.239185751
ILMN_1212636 10.5611765 0
ILMN_1212637 9.080684877 0
ILMN_1212645 4.490551966 0.787531807
ILMN_1212648 8.66793214 0
ILMN_1212653 6.21488756 0
ILMN_1212672 7.953537256 0
ILMN_1212682 5.454332416 0.063613232
ILMN_1212683 4.787266137 0.320610687
ILMN_1212685 4.482194048 0.805343511
ILMN_1212692 4.865919545 0.269720102
ILMN_1212693 6.719170913 0
ILMN_1212695 6.30217325 0
ILMN_1212698 4.482370182 0.805343511
ILMN_1212702 13.83636434 0
ILMN_1212703 7.348480277 0

Total number of rows: 25681

Table truncated, full table size 828 Kbytes.




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

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