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Sample GSM1847069 Query DataSets for GSM1847069
Status Public on Aug 11, 2015
Title Young 3
Sample type RNA
 
Source name CD11c cells (lungs)
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: Lungs
cell type: CD11c cells
cell age: 6-8 weeks
Extracted molecule total RNA
Extraction protocol Pulmonary CD11 cells separated using magnetic beads (miltenyi). Total RNA from CD11c cells extracted using mirVana kit (Life Technologies) according to manufacturer's protocol. Quality checked using agilent Bioanalyzer.
Label biotin
Label protocol DNA microarray sample processing. RNA sample preparation for hybridization and the subsequent hybridization to the Illumina beadchips were performed at the University of Iowa DNA Facility using the manufacturer’s recommended protocol. Briefly, 100 nanograms total RNA was converted to amplified Biotin- aRNA using the Epicentre TargetAmp-Nano Labeling Kit for Illumina Expression BeadChip (Illumina, Inc., San Diego, CA, Cat. #TAN07924) according to the manufacturer’s recommended protocol. The amplified Biotin-aRNA product was purified through a QIAGEN RNeasy MinElute Cleanup column (QIAGEN Cat #74204) according to modifications from Epicentre.
 
Hybridization protocol 750 ng of this product were mixed with Illumina hybridization buffer, placed onto Illumina MouseRef-8 v2.0 expression beadchip, and incubated at 58º C for 17h, with rocking, in an Illumina Hybridization Oven. Following hybridization, the arrays were washed, blocked, then stained with streptavidin-Cy3 (Amersham/GE Healthcare, Piscataway, NJ) according to the Illumina Whole-Genome Gene Expression Direct Hybridization Assay protocol.
Scan protocol Beadchips were scanned with the Illumina iScan System (ID #N0534) and data were collected using the GenomeStudio software v2011.1.
Description replicate 3
Data processing GenomeStudio software v2011.1.
 
Submission date Aug 10, 2015
Last update date Aug 11, 2015
Contact name Thomas B Bair
E-mail(s) iihg-bioinformatics@uiowa.edu
Organization name University of Iowa
Street address 335 EMRB
City Iowa City
State/province IA
ZIP/Postal code 52242
Country USA
 
Platform ID GPL6885
Series (1)
GSE71868 Gene expression pattern of pulmonary CD11c+ cells from middle-aged and young mice.

Data table header descriptions
ID_REF
VALUE Qunatile normalized
07_Y-3.Avg_NBEADS
07_Y-3.BEAD_STDERR
07_Y-3.Detection Pval

Data table
ID_REF VALUE 07_Y-3.Avg_NBEADS 07_Y-3.BEAD_STDERR 07_Y-3.Detection Pval
ILMN_2896528 906.4465 44 18.03506 0
ILMN_2721178 198.2964 50 6.978575 0
ILMN_3033922 443.984 39 10.36129 0
ILMN_3092673 2513.507 43 46.84178 0
ILMN_2816356 11.90014 34 2.670193 0.07017544
ILMN_2808939 225.6683 36 7.933891 0
ILMN_2634564 254.8111 39 9.125816 0
ILMN_2737647 11.03545 33 4.114725 0.0802005
ILMN_2734484 145.8116 54 7.278304 0
ILMN_2952292 93.16526 52 3.82096 0
ILMN_2699078 -2.875273 48 2.986904 0.622807
ILMN_1213681 90.52341 50 4.281123 0
ILMN_2735413 -2.082385 33 3.832678 0.5651629
ILMN_2735415 -0.2715465 33 3.097842 0.4323308
ILMN_2891688 223.534 30 9.351317 0
ILMN_2637698 796.0756 33 23.87217 0
ILMN_2674228 169.461 46 7.003656 0
ILMN_2601546 3.208084 54 2.261313 0.2719298
ILMN_1230831 -3.877307 33 2.524015 0.697995
ILMN_2848071 10.77686 35 3.752076 0.08646616

Total number of rows: 25697

Table truncated, full table size 1035 Kbytes.




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

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