GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM2188961 Query DataSets for GSM2188961
Status Public on Jun 01, 2018
Title 346 Tumor
Sample type RNA
Source name Tumor 346
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
VALUE normalized signal

Data table
100008567_at 6.660089816
100009600_at 5.244835751
100012_at 2.887778092
100017_at 7.545986649
100019_at 7.297519499
100034251_at 13.33639661
100034739_at 4.059855905
100034748_at 4.080773894
100036520_at 3.730897544
100036521_at 7.64583603
100036523_at 3.712677386
100036768_at 3.779048226
100037258_at 7.918534967
100037262_at 4.642977047
100037278_at 6.228169051
100038347_at 6.062772229
100038358_at 3.845625014
100038371_at 2.709894284
100038392_at 3.955232734
100038398_at 4.374184441

Total number of rows: 17566

Table truncated, full table size 365 Kbytes.

Supplementary file Size Download File type/resource
GSM2188961_11_346.CEL.gz 3.3 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap