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Sample GSM1468716 Query DataSets for GSM1468716
Status Public on Sep 28, 2014
Title AM KO adult biological rep2
Sample type RNA
Source name AM from lungs of 2 adult CD11cCre/PPARg fl/fl mice
Organism Mus musculus
Characteristics background strain: C57BL/6
Treatment protocol Organs were minced and digested with 2 mg/ml of type IV collagenase (Worthington) and 0.02 mg/ml DNaseI (Sigma) at 37°C for 45 minutes and subsequently passed through a 70 μm cell strainer. Cells were stained with eF780, anti-mouse CD45, CD11c, CD11b and Siglec-F. Mature AM were sorted as eF780-CD45+CD11chighautofluorescencehighSiglec-F+ and CD11blow or CD11bhigh from 11 days old or adult Ppargfl/fl and CD11c-Cre/Ppargfl/fl mice, respectively (BD FACSAria IIIu) and pre-AM (eF780-CD45+F4/80+CD11chigh and Siglec-FintCD11bint or Siglec-FlowCD11bhigh) were sorted from 2 days old mice.
Extracted molecule total RNA
Extraction protocol RNA was prepared from sorted populations using Trizol extraction and PureLink RNA Mini Kit (ambion, Life Technologies Co.) according to the manufacturer's instructions.
Label biotin
Label protocol Sense-stranded cDNA (5 µg) was fragmented and biotin-labeled according to the standard Affymetrix protocol (GeneChip® WT Terminal Labeling and Hybridization User Manual, 2011, Affymetrix)
Hybridization protocol Samples were further hybridized for 20 hr at 48ºC on Affymetrix® Mouse Gene 1.1 ST Array Strip in the Affymetrix GeneAtlas Hybridization Station. Arrays were then washed and stained using Affymetrix GeneAtlas Fluidics Station.
Scan protocol An Affymetrix GeneAtlas Imaging Station was used to measure the fluorescent intensity emitted by the labeled target.
Description arrested immature preAM
Data processing R (version 2.15.2)/Bioconductor (version 2.11) was used to perform RMA with package "affy".
Submission date Aug 08, 2014
Last update date Sep 28, 2014
Contact name Christoph Schneider
Organization name ETH Zurich
Department Department of Biology, Institute of Molecular Health Sciences
Lab Molecular Biomedicine
Street address Otto-Stern-Weg 7
City Zurich
ZIP/Postal code 8093
Country Switzerland
Platform ID GPL11533
Series (2)
GSE60248 PPARγ controls alveolar macrophage identity [part2]
GSE60249 PPARγ controls alveolar macrophage identity

Data table header descriptions
VALUE log2-normalized signal intensities.

Data table
10474700 10.32
10517508 8.811
10531737 8.92
10583056 10.21
10557862 8.611
10358339 8.185
10547657 8.784
10435641 8.954
10509577 8.231
10419568 8.426
10564818 10.08
10462507 7.272
10564713 9.832
10424119 7.682
10557177 8.165
10347335 9.44
10489246 8.602
10407072 7.529
10517513 7.082
10376950 10.61

Total number of rows: 28371

Table truncated, full table size 412 Kbytes.

Supplementary file Size Download File type/resource
GSM1468716_KO_adult_2.cel.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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