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Sample GSM1285967 Query DataSets for GSM1285967
Status Public on Dec 09, 2016
Title whole lung_treated_6
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_B
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 4.577157153 0.471042471
ILMN_1212612 6.967559191 0
ILMN_1212619 5.50726687 0
ILMN_1212628 4.495717098 0.705276705
ILMN_1212632 4.67235213 0.288288288
ILMN_1212636 10.04512885 0
ILMN_1212637 9.188813089 0
ILMN_1212645 5.037563652 0.036036036
ILMN_1212648 7.064393862 0
ILMN_1212653 9.142910025 0
ILMN_1212672 7.223749532 0
ILMN_1212682 4.615636367 0.391248391
ILMN_1212683 4.668189507 0.293436293
ILMN_1212685 4.676209158 0.284427284
ILMN_1212692 6.593341827 0
ILMN_1212693 8.03529894 0
ILMN_1212695 4.773134675 0.173745174
ILMN_1212698 4.414168424 0.924066924
ILMN_1212702 14.61752052 0
ILMN_1212703 6.513298898 0

Total number of rows: 25681

Table truncated, full table size 799 Kbytes.




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

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