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Sample GSM1285965 Query DataSets for GSM1285965
Status Public on Dec 09, 2016
Title alveolar macrophage_treated_8
Sample type RNA
 
Source name alveolar macrophage_treated
Organism Mus musculus
Characteristics strain: C57BL6
treatment: antibiotic
cell type: alveolar macrophage
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_H
cell
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 4.8118309 0.300511509
ILMN_1212612 4.464785665 0.84398977
ILMN_1212619 5.319080744 0.090792839
ILMN_1212628 4.511981713 0.742966752
ILMN_1212632 4.476602334 0.813299233
ILMN_1212636 10.16040983 0
ILMN_1212637 8.862361541 0
ILMN_1212645 4.672378272 0.45140665
ILMN_1212648 8.128350222 0
ILMN_1212653 5.070460675 0.149616368
ILMN_1212672 8.229400766 0
ILMN_1212682 6.257012361 0.001278772
ILMN_1212683 4.426894501 0.909207161
ILMN_1212685 4.640211088 0.512787724
ILMN_1212692 5.040242959 0.16112532
ILMN_1212693 7.024225866 0
ILMN_1212695 7.05106675 0
ILMN_1212698 5.955502703 0.015345269
ILMN_1212702 14.5633579 0
ILMN_1212703 7.091355573 0

Total number of rows: 25681

Table truncated, full table size 831 Kbytes.




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

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