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Sample GSM1285949 Query DataSets for GSM1285949
Status Public on Dec 09, 2016
Title whole lung_untreated_4
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 9340020021_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 4.554493166 0.567010309
ILMN_1212612 7.211935161 0
ILMN_1212619 5.129767624 0.021907216
ILMN_1212628 4.506886452 0.684278351
ILMN_1212632 4.982990689 0.067010309
ILMN_1212636 10.1707117 0
ILMN_1212637 8.672677289 0
ILMN_1212645 4.820637112 0.154639175
ILMN_1212648 6.960916536 0
ILMN_1212653 8.663697962 0
ILMN_1212672 6.815762091 0
ILMN_1212682 4.905828947 0.096649485
ILMN_1212683 4.515496183 0.663659794
ILMN_1212685 4.598857084 0.458762887
ILMN_1212692 7.021626918 0
ILMN_1212693 7.719667998 0
ILMN_1212695 4.575513154 0.511597938
ILMN_1212698 4.405695672 0.940721649
ILMN_1212702 14.50449244 0
ILMN_1212703 6.55577586 0

Total number of rows: 25681

Table truncated, full table size 801 Kbytes.




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

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