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Sample GSM1285960 Query DataSets for GSM1285960
Status Public on Dec 09, 2016
Title alveolar macrophage_untreated_5
Sample type RNA
 
Source name alveolar macrophage_untreated
Organism Mus musculus
Characteristics strain: C57BL6
treatment: none
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_C
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 4.585921222 0.563938619
ILMN_1212612 4.423300308 0.923273657
ILMN_1212619 4.897167722 0.193094629
ILMN_1212628 4.778277824 0.300511509
ILMN_1212632 4.961211546 0.159846547
ILMN_1212636 10.57236105 0
ILMN_1212637 9.114711947 0
ILMN_1212645 4.599365719 0.544757033
ILMN_1212648 8.465520045 0
ILMN_1212653 6.379914632 0
ILMN_1212672 7.956966318 0
ILMN_1212682 4.788188435 0.286445013
ILMN_1212683 4.415082561 0.933503836
ILMN_1212685 4.495734754 0.771099744
ILMN_1212692 4.643024888 0.464194373
ILMN_1212693 6.863891483 0
ILMN_1212695 6.370736662 0
ILMN_1212698 4.479447515 0.813299233
ILMN_1212702 14.50449244 0
ILMN_1212703 7.035796355 0

Total number of rows: 25681

Table truncated, full table size 822 Kbytes.




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

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