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Sample GSM1285946 Query DataSets for GSM1285946
Status Public on Dec 09, 2016
Title whole lung_untreated_3
Sample type RNA
 
Source name whole lung_untreated
Organism Mus musculus
Characteristics strain: C57BL6
treatment: none
tissue: whole lung
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_E
tissue
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 4.671675263 0.293577982
ILMN_1212612 6.769434976 0
ILMN_1212619 5.567920977 0
ILMN_1212628 4.516724297 0.655307995
ILMN_1212632 4.665688202 0.302752294
ILMN_1212636 9.572878292 0
ILMN_1212637 8.943761612 0
ILMN_1212645 4.713573116 0.242463958
ILMN_1212648 7.18738121 0
ILMN_1212653 8.650336289 0
ILMN_1212672 7.310846309 0
ILMN_1212682 4.681667969 0.281782438
ILMN_1212683 4.915489912 0.087811271
ILMN_1212685 4.481744828 0.753604194
ILMN_1212692 7.217727522 0
ILMN_1212693 8.535417137 0
ILMN_1212695 4.669956517 0.298820446
ILMN_1212698 4.418178409 0.933158585
ILMN_1212702 14.1198109 0
ILMN_1212703 6.572347162 0

Total number of rows: 25681

Table truncated, full table size 799 Kbytes.




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

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