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Sample GSM905051 Query DataSets for GSM905051
Status Public on Jun 10, 2012
Title Mouse tumorgraft, cohort 0 of patient T127
Sample type RNA
 
Source name Gene expression profiling of mouse tumorgraft, cohort 0 of patient T127
Organism Homo sapiens
Characteristics patient id: T127
tissue: Mouse tumorgraft, cohort 0
gender: Male
age: 35
disease state: Clear-cell renal cell carcinoma
bap1 status: wild type
pbrm1 status: wild type
vhl status: mutant
Extracted molecule total RNA
Extraction protocol Tissues were homogenized with an RNase-free pestle alternating freeze/thaw cycles and subsequently passed through a QIAshredder column (Qiagen). RNA fraction was extracted using mirVana (Ambion) kit.
Label Biotin
Label protocol RNA was reverse-transcribed and biotin-labeled using Affymetrix one-cycle cDNA synthesis and IVT labeling kits (Affymetrix).
 
Hybridization protocol Arrays were washed and hybridized using Affymetrix Fluidics Station 450.
Scan protocol Arrays were scanned using Affymetrix GeneChip Scanner 3000 7G.
Data processing CEL files were pre-processed and normalized using the RMA algorithm through the Affy package of R/Bioconductor.
 
Submission date Mar 28, 2012
Last update date Jun 10, 2012
Contact name Samuel Peña-Llopis
E-mail(s) Samuel.Pena-Llopis@UTSouthwestern.edu, James.Brugarolas@UTSouthwestern.edu
Phone (01) 214-648-4099
Fax (01) 214-648-1960
Organization name UT Southwestern Medical Center
Department Internal Medicine - Oncology Division
Lab Brugarolas Lab
Street address 6000 Harry Hines Blvd., NB5.102
City Dallas
State/province TX
ZIP/Postal code 75390-9133
Country USA
 
Platform ID GPL570
Series (1)
GSE36895 Molecular Genetic Classification of clear-cell Renal Cell Carcinoma (ccRCC) based on the Gene Expression Profiling of Tumors and Tumorgrafts deficient for BAP1 or PBRM1

Data table header descriptions
ID_REF
VALUE Log2-transformed RMA signal.

Data table
ID_REF VALUE
1007_s_at 11.34562003
1053_at 9.217222265
117_at 6.989460928
121_at 10.66257661
1255_g_at 3.421103533
1294_at 7.900398498
1316_at 7.096440094
1320_at 6.342802612
1405_i_at 4.05357799
1431_at 5.357415891
1438_at 6.32463867
1487_at 8.79787122
1494_f_at 6.481892785
1552256_a_at 10.77557441
1552257_a_at 9.030789971
1552258_at 6.478271966
1552261_at 6.841137428
1552263_at 7.11653491
1552264_a_at 8.644665602
1552266_at 3.653729199

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM905051_TG127c0_Exp.CEL.gz 5.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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