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Sample GSM1285957 Query DataSets for GSM1285957
Status Public on Dec 09, 2016
Title alveolar macrophage_treated_4
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 9377360001_H
Data processing NEQC normalized implemented in beadarray package.
Submission date Dec 10, 2013
Last update date Dec 09, 2016
Contact name Brendon Paul Scicluna
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
VALUE NEQC-normalized signal
detection Pval

Data table
ID_REF VALUE detection Pval
ILMN_1212607 4.754716258 0.325611326
ILMN_1212612 4.585196982 0.554697555
ILMN_1212619 5.267775308 0.066924067
ILMN_1212628 4.407181811 0.953667954
ILMN_1212632 4.696145725 0.386100386
ILMN_1212636 10.47312374 0
ILMN_1212637 9.307815268 0
ILMN_1212645 4.592729918 0.536679537
ILMN_1212648 8.475218391 0
ILMN_1212653 5.995813658 0
ILMN_1212672 7.795478754 0
ILMN_1212682 5.658453125 0.015444015
ILMN_1212683 4.618865336 0.489060489
ILMN_1212685 4.612948343 0.501930502
ILMN_1212692 5.237232645 0.073359073
ILMN_1212693 6.712444834 0
ILMN_1212695 6.841354914 0
ILMN_1212698 4.468202918 0.83011583
ILMN_1212702 14.13458282 0
ILMN_1212703 7.295773197 0

Total number of rows: 25681

Table truncated, full table size 823 Kbytes.

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

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