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Sample GSM1285954 Query DataSets for GSM1285954
Status Public on Dec 09, 2016
Title whole lung_treated_3
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 9377360001_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 4.848582558 0.106355383
ILMN_1212612 6.972282155 0
ILMN_1212619 5.572330075 0
ILMN_1212628 4.586888331 0.431906615
ILMN_1212632 5.191371867 0
ILMN_1212636 10.39404963 0
ILMN_1212637 9.119243569 0
ILMN_1212645 4.720798017 0.21919585
ILMN_1212648 7.25001255 0
ILMN_1212653 8.837840031 0
ILMN_1212672 6.984840796 0
ILMN_1212682 4.605965604 0.391699092
ILMN_1212683 4.652656528 0.307392996
ILMN_1212685 4.537729937 0.548638132
ILMN_1212692 6.4166759 0
ILMN_1212693 7.863699296 0
ILMN_1212695 5.041676179 0.02075227
ILMN_1212698 4.469514408 0.778210117
ILMN_1212702 14.68386931 0
ILMN_1212703 5.879700507 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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