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Sample GSM2188959 Query DataSets for GSM2188959
Status Public on Jun 01, 2018
Title 333 Tumor
Sample type RNA
 
Source name Tumor 333
Organism Mus musculus
Characteristics tissue: Tumor from GEMM
Treatment protocol Tumors were generated by treatment of mice with doxycycline. Control mice were also treated with doxycycline before fallopian tube extraction.
Growth protocol Mice were bred following the IACUC protocol at MD Anderson Cancer Center mouse facility.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix U133 Plus 2.0 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Gene expression data from tumors of doxycycline inducible GEMM
Data processing Robust multi-array average (RMA) method was used with default options (with background correction, quantile normalization, and log transformation) to normalize raw data from batches using R/Bioconductor‘s affy package
 
Submission date Jun 06, 2016
Last update date Jun 01, 2018
Contact name Sharmistha Sarkar
Organization name The University of Texas MD Anderson Cancer Center
Department Genomic Medicine
Street address 1515 Holcombe Boulevard
City Houston
State/province Texas
ZIP/Postal code 77030
Country USA
 
Platform ID GPL16368
Series (1)
GSE82319 PRKCI promotes immune suppression in ovarian cancer through YAP1

Data table header descriptions
ID_REF
VALUE normalized signal

Data table
ID_REF VALUE
100008567_at 6.590124261
100009600_at 5.000475397
100012_at 2.608571736
100017_at 7.097259406
100019_at 7.322992079
100034251_at 11.923253
100034739_at 3.569677644
100034748_at 3.814652206
100036520_at 3.450439808
100036521_at 7.768778536
100036523_at 3.559373169
100036768_at 3.597239444
100037258_at 8.230213615
100037262_at 4.381275635
100037278_at 5.640248017
100038347_at 7.201885171
100038358_at 3.746428464
100038371_at 2.583202599
100038392_at 3.578492153
100038398_at 6.200366949

Total number of rows: 17566

Table truncated, full table size 365 Kbytes.




Supplementary file Size Download File type/resource
GSM2188959_09_333.CEL.gz 3.5 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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