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Sample GSM1285964 Query DataSets for GSM1285964
Status Public on Dec 09, 2016
Title whole lung_treated_4
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 9377360004_G
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 4.564112645 0.531130877
ILMN_1212612 6.854711749 0
ILMN_1212619 5.424203638 0
ILMN_1212628 4.933846878 0.063532402
ILMN_1212632 4.822128285 0.132147395
ILMN_1212636 10.076862 0
ILMN_1212637 9.137582078 0
ILMN_1212645 4.650220613 0.345616264
ILMN_1212648 6.887582479 0
ILMN_1212653 8.989409045 0
ILMN_1212672 6.911459492 0
ILMN_1212682 4.742640157 0.205844981
ILMN_1212683 4.558804315 0.547649301
ILMN_1212685 4.741799313 0.207115629
ILMN_1212692 6.945898691 0
ILMN_1212693 8.315761314 0
ILMN_1212695 4.991528327 0.041931385
ILMN_1212698 4.502524146 0.709021601
ILMN_1212702 14.58539125 0
ILMN_1212703 6.300978366 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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