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Sample GSM1462664 Query DataSets for GSM1462664
Status Public on Sep 09, 2015
Title MTS 1 (KR-N+/-)
Sample type RNA
 
Source name KR-Notch1+/-
Organism Mus musculus
Characteristics tissue: Oral tumor tissue
Treatment protocol At the time of isolation, tumors were placed in Trizol, snap frozen and stored at -80 C.
Growth protocol Oral tumors were allowed to grow for 21d and were isolated.
Extracted molecule total RNA
Extraction protocol RNA was extracted with Trizol reagent, followed by clean-up and DNase I treated. 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 Biological Replicate 1
Data processing The data were normalised using quantile normalisation with background subtrations in Genome Studio. Data was exported and analyzed by Partek Genomics Suite 6.
 
Submission date Jul 31, 2014
Last update date Sep 09, 2015
Contact name Michael Spiotto
E-mail(s) mspiotto@radonc.uchicago.edu
Organization name The University of Chicago
Department Radiation Oncology
Lab KCBD 6142
Street address 900 E. 57th St
City Chicago
State/province IL
ZIP/Postal code 60637
Country USA
 
Platform ID GPL6885
Series (1)
GSE59951 Expression analysis of KHR and KR oral tumors with intact or deficient Notch1

Data table header descriptions
ID_REF
VALUE quantile normalized
MTS 1 (KR-N+/-).Avg_NBEADS
MTS 1 (KR-N+/-).BEAD_STDERR
MTS 1 (KR-N+/-).Detection Pval

Data table
ID_REF VALUE MTS 1 (KR-N+/-).Avg_NBEADS MTS 1 (KR-N+/-).BEAD_STDERR MTS 1 (KR-N+/-).Detection Pval
ILMN_2896528 594.6642 35 9.218349 0
ILMN_2721178 138.0858 27 5.271172 0
ILMN_3033922 83.38779 24 3.17152 0
ILMN_3092673 1223.745 25 21.21155 0
ILMN_2816356 6.584686 21 1.343054 0.0877193
ILMN_2808939 258.7328 29 4.086315 0
ILMN_2634564 200.7886 25 5.878745 0
ILMN_2737647 -3.706539 23 1.539991 0.8947368
ILMN_2734484 73.03442 28 2.881707 0
ILMN_2952292 40.05752 27 2.353171 0
ILMN_2699078 2.699382 26 2.350552 0.2481203
ILMN_1213681 43.78427 34 2.255397 0
ILMN_2735413 -2.101817 21 2.338269 0.7794486
ILMN_2735415 -2.289923 28 1.655275 0.7944862
ILMN_2891688 182.6249 31 3.114439 0
ILMN_2637698 311.4625 28 7.589224 0
ILMN_2674228 74.43076 24 3.21367 0
ILMN_2601546 10.02009 32 1.482865 0.04761905
ILMN_1230831 0.7322816 16 2.950906 0.4085213
ILMN_2848071 -3.613714 29 2.067881 0.8834587

Total number of rows: 25697

Table truncated, full table size 1050 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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