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Sample GSM2221403 Query DataSets for GSM2221403
Status Public on Jun 09, 2017
Title Tumor-3x8Gy-4hrs-1
Sample type RNA
 
Source name TSA mammary tumor
Organism Mus musculus
Characteristics tissue: mammary tumor
Extracted molecule total RNA
Extraction protocol Total RNA was extracted after homogenization of the sample using miRNeasy Mini kit (Qiagen) according to the manufacturer's protocol.
Label Alexa-555
Label protocol Total RNA was reverse transcribed after priming with a DNA oligonucleotide containing the T7 RNA polymerase promoter 5’ to a d(T)24 sequence. After second-strand cDNA synthesis and purification of double-stranded cDNA, in vitro transcription was performed using T7 RNA polymerase. The quantity and quality of the cRNA was assayed by spectrophotometry and on the Agilent Bioanalyzer as indicated for Total RNA analysis.
 
Hybridization protocol Purified cRNA was fragmented to uniform size and applied to Agilent Mouse Gene Expression 4x44 v2 Microarray (Agilent Technologies, design ID 026655) in hybridization buffer. Arrays were hybridized at 37° C for 18 hrs. in a rotating incubator.
Scan protocol Arrays were scanned on an Agilent G2505B Microarray Scanner
Data processing All arrays were processed with Agilent Feature Extraction software and data was analyzed with GeneSpring GX software (Agilent Technologies).
 
Submission date Jun 30, 2016
Last update date Jun 10, 2017
Contact name Sandra Demaria
E-mail(s) szd3005@med.cornell.edu
Organization name Weill Cornell Medicine
Department Radiation Oncology
Lab Demaria Lab
Street address 1300 York avenue, Room A-279
City New York
State/province New York
ZIP/Postal code 10065
Country USA
 
Platform ID GPL11202
Series (1)
GSE83915 Comparison of gene expression changes in TSA tumors following different radiation regimens.

Data table header descriptions
ID_REF
VALUE Intensity values are quantile normalized across 18 samples and further normalized to the mean expression with each 0Gy-MF-SD set.

Data table
ID_REF VALUE
A_51_P100034 1.04
A_51_P100174 1.03
A_51_P100208 1.42
A_51_P100289 0.64
A_51_P100298 0.96
A_51_P100309 1.02
A_51_P100327 1.17
A_51_P100347 1.00
A_51_P100519 0.71
A_51_P100537 0.40
A_51_P100573 1.06
A_51_P100624 0.86
A_51_P100625 0.99
A_51_P100768 0.95
A_51_P100776 0.88
A_51_P100787 1.04
A_51_P100828 0.97
A_51_P100852 0.93
A_51_P100991 1.03
A_51_P100997 0.99

Total number of rows: 39429

Table truncated, full table size 716 Kbytes.




Supplementary file Size Download File type/resource
GSM2221403_GE_MF_1A.txt.gz 9.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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