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Sample GSM1285966 Query DataSets for GSM1285966
Status Public on Dec 09, 2016
Title whole lung_treated_5
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_A
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 4.487647968 0.751928021
ILMN_1212612 6.892432996 0
ILMN_1212619 5.536148444 0
ILMN_1212628 4.5768185 0.493573265
ILMN_1212632 5.003151223 0.059125964
ILMN_1212636 9.971979293 0
ILMN_1212637 8.983592658 0
ILMN_1212645 4.68872751 0.28277635
ILMN_1212648 7.049757921 0
ILMN_1212653 9.075909198 0
ILMN_1212672 6.565103161 0
ILMN_1212682 4.789612982 0.170951157
ILMN_1212683 4.567056386 0.517994859
ILMN_1212685 4.375895806 0.967866324
ILMN_1212692 6.575007003 0
ILMN_1212693 8.18557017 0
ILMN_1212695 5.065199774 0.035989717
ILMN_1212698 4.353874198 0.988431877
ILMN_1212702 14.5633579 0
ILMN_1212703 6.477057072 0

Total number of rows: 25681

Table truncated, full table size 802 Kbytes.




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

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