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Sample GSM1285956 Query DataSets for GSM1285956
Status Public on Dec 09, 2016
Title whole lung_untreated_5
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 9377360001_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 4.581912116 0.47631242
ILMN_1212612 7.264754321 0
ILMN_1212619 5.573727476 0
ILMN_1212628 4.729816317 0.211267606
ILMN_1212632 4.801047111 0.135723431
ILMN_1212636 9.971979293 0
ILMN_1212637 9.368244602 0
ILMN_1212645 4.743155949 0.198463508
ILMN_1212648 7.100924107 0
ILMN_1212653 9.12258012 0
ILMN_1212672 6.954899348 0
ILMN_1212682 4.948906257 0.057618438
ILMN_1212683 4.982401581 0.044814341
ILMN_1212685 4.426131196 0.909090909
ILMN_1212692 6.76249922 0
ILMN_1212693 8.047827726 0
ILMN_1212695 4.681782948 0.267605634
ILMN_1212698 4.398011852 0.955185659
ILMN_1212702 14.47116813 0
ILMN_1212703 6.253002017 0

Total number of rows: 25681

Table truncated, full table size 797 Kbytes.




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

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