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Sample GSM1285947 Query DataSets for GSM1285947
Status Public on Dec 09, 2016
Title whole lung_treated_1
Sample type RNA
 
Source name whole lung_treated
Organism Mus musculus
Characteristics strain: C57BL6
treatment: antibiotic
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_F
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 4.745221717 0.179354839
ILMN_1212612 7.448500682 0
ILMN_1212619 5.844657132 0
ILMN_1212628 4.478184011 0.736774194
ILMN_1212632 4.826205931 0.110967742
ILMN_1212636 10.1681665 0
ILMN_1212637 9.208775063 0
ILMN_1212645 4.703051083 0.23483871
ILMN_1212648 6.746493303 0
ILMN_1212653 8.810494688 0
ILMN_1212672 6.851946387 0
ILMN_1212682 4.81073512 0.126451613
ILMN_1212683 4.943454938 0.042580645
ILMN_1212685 4.542763931 0.541935484
ILMN_1212692 6.865744655 0
ILMN_1212693 8.036914567 0
ILMN_1212695 4.528226056 0.592258065
ILMN_1212698 4.800134489 0.132903226
ILMN_1212702 14.68386931 0
ILMN_1212703 6.264569209 0

Total number of rows: 25681

Table truncated, full table size 795 Kbytes.




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

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