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Sample GSM1055344 Query DataSets for GSM1055344
Status Public on Sep 05, 2013
Title Hippocampus, Wild type, young (1 month)-3
Sample type RNA
Source name Hippocampus, Wild type, young (1 month)
Organism Mus musculus
Characteristics background strain: C57BL/6J
genotype/variation: wild type
age: Young (1 month)
tissue: Hippocampus
Growth protocol Wild type and knockout mice were fed a chow diet after weaning for the entire duration of the experiment. Young mice were sacrificed at 1 month and old mice were sacrificed at 21-23 months.
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent, and then transferred to QIAGEN RNeasy columns and Dnase I treated according to the prescribed protocol provided with the kit. Quality control and RNA concentration were determined using Nanodrop and Agilent Bioanalyser.
Label biotin
Label protocol Epicentre TargetAmp Nano-g Biotin-aRNA Labeling Kit for Illumina (TAN07924)-Manufacturer's protocol 200ng input total RNA
Hybridization protocol Illumina Whole Genome Expression Direct Hybridization Assay Guide- 750 ng labeled aRNA hybridized to array
Scan protocol Standard Illumina scanning protocol
Description 3.AVG_Signal
Data processing Quantile normalization and background subtraction using Illumina GenomeStudio Gene Expression Module v1.9.0
Submission date Dec 19, 2012
Last update date Sep 05, 2013
Contact name Ryan Grant
Phone 225-763-2763
Fax 225-763-0261
Organization name Pennington Biomedical Research Center
Lab Immunobiology
Street address 6400 Perkins Rd
City Baton Rouge
State/province LA
ZIP/Postal code 70808
Country USA
Platform ID GPL6885
Series (1)
GSE43034 Canonical Nlrp3 inflammasome activation links systemic age-related inflammation with functional decline

Data table header descriptions
VALUE Illumina GenomeStudio background subtracted and quantile normalized
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 2114.957 0
ILMN_2721178 297.8268 0
ILMN_3033922 493.5779 0
ILMN_3092673 3450.352 0
ILMN_2816356 18.0556 0.04761905
ILMN_2808939 502.313 0
ILMN_2634564 240.2651 0
ILMN_2737647 7.84006 0.1516291
ILMN_2734484 359.5991 0
ILMN_2952292 44.00353 0.001253133
ILMN_2699078 -4.880785 0.6942356
ILMN_1213681 192.8227 0
ILMN_2735413 1.361719 0.3370927
ILMN_2735415 4.08923 0.2493734
ILMN_2891688 505.227 0
ILMN_2637698 911.5765 0
ILMN_2674228 106.5378 0
ILMN_2601546 10.4196 0.1140351
ILMN_1230831 2.629961 0.2907268
ILMN_2848071 28.90518 0.01002506

Total number of rows: 25697

Table truncated, full table size 730 Kbytes.

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

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