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Sample GSM1285973 Query DataSets for GSM1285973
Status Public on Dec 09, 2016
Title whole lung_treated_8
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 9377360006_H
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 4.791989173 0.156812339
ILMN_1212612 7.251845121 0
ILMN_1212619 5.703804935 0
ILMN_1212628 4.757973885 0.194087404
ILMN_1212632 5.324167229 0
ILMN_1212636 10.08155029 0
ILMN_1212637 8.937588918 0
ILMN_1212645 5.451464172 0
ILMN_1212648 7.014179682 0
ILMN_1212653 8.706495789 0
ILMN_1212672 6.751221368 0
ILMN_1212682 4.502253726 0.715938303
ILMN_1212683 4.583101515 0.4781491
ILMN_1212685 4.578893434 0.483290488
ILMN_1212692 7.076743069 0
ILMN_1212693 7.847800636 0
ILMN_1212695 4.995489395 0.046272494
ILMN_1212698 4.462789734 0.823907455
ILMN_1212702 14.54281402 0
ILMN_1212703 6.583919538 0

Total number of rows: 25681

Table truncated, full table size 800 Kbytes.




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

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