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Sample GSM1363389 Query DataSets for GSM1363389
Status Public on Apr 05, 2014
Title Ovarian tumor, rep 3
Sample type RNA
 
Source name Mouse ovarian tumor
Organism Mus musculus
Characteristics strain/background: mixed C57BL/6;BALB/c;129
genotype/variation: Arid1a flox/flox;Pten flox/flox
ovarian bursal injection: AdCre
tissue: ovarian tumor
Extracted molecule total RNA
Extraction protocol RNA was extracted with QIAGEN RNeasy mini kit and cleaned-up with DNase I treatment in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays.
 
Hybridization protocol Standard Illumina hybridization protocol.
Scan protocol Standard Illumina scanning protocol.
Description T976
Replicate 3 of 5.
Data processing The data were background subtracted, quantile normalized, and log2 transformed using neqc function in limma package in R.
 
Submission date Apr 04, 2014
Last update date Apr 05, 2014
Contact name Ie-Ming Shih
Organization name Johns Hopkins University School of Medicine
Department Pathology
Street address 1550 Orleans St. CRB-II, Room 305
City Baltimore
State/province Maryland
ZIP/Postal code 21231
Country USA
 
Platform ID GPL6885
Series (1)
GSE56531 Arid1a deletion in collaboration with Pten deletion leads to ovarian tumorigenesis in mouse

Data table header descriptions
ID_REF
VALUE Log2 quantile-normalized signal intensity
Detection Pval

Data table
ID_REF VALUE Detection Pval
ILMN_2896528 12.31236921 0
ILMN_2721178 10.6584194 0
ILMN_3033922 9.72695535 0
ILMN_3092673 12.1056647 0
ILMN_2816356 5.794141078 0
ILMN_2808939 10.34875227 0
ILMN_2634564 8.454480357 0
ILMN_2737647 4.48190713 0.24937
ILMN_2734484 8.57343521 0
ILMN_2952292 6.862184395 0
ILMN_2699078 4.402242976 0.44486
ILMN_1213681 7.945181226 0
ILMN_2735413 4.651820762 0.09524
ILMN_2735415 4.575902434 0.14286
ILMN_2891688 9.961063157 0
ILMN_2637698 9.855161983 0
ILMN_2674228 8.450063923 0
ILMN_2601546 4.872040099 0.03383
ILMN_1230831 4.289527 0.82832
ILMN_2848071 4.560196844 0.16416

Total number of rows: 25697

Table truncated, full table size 753 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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