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Sample GSM1285971 Query DataSets for GSM1285971
Status Public on Dec 09, 2016
Title alveolar macrophage_untreated_8
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 9377360006_F
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 4.543326209 0.651670951
ILMN_1212612 4.581831405 0.55655527
ILMN_1212619 4.94767596 0.212082262
ILMN_1212628 4.754800678 0.344473008
ILMN_1212632 5.413741332 0.064267352
ILMN_1212636 10.60493146 0
ILMN_1212637 8.823286682 0
ILMN_1212645 4.793812441 0.316195373
ILMN_1212648 8.162485279 0
ILMN_1212653 5.6540562 0.033419023
ILMN_1212672 7.866663547 0
ILMN_1212682 5.598336976 0.037275064
ILMN_1212683 4.63538474 0.484575835
ILMN_1212685 4.488727097 0.785347044
ILMN_1212692 4.463786872 0.853470437
ILMN_1212693 5.805266262 0.019280206
ILMN_1212695 6.94851641 0
ILMN_1212698 4.406429403 0.944730077
ILMN_1212702 12.94744691 0
ILMN_1212703 7.023191385 0

Total number of rows: 25681

Table truncated, full table size 825 Kbytes.




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

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