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Sample GSM177949 Query DataSets for GSM177949
Status Public on Jun 11, 2007
Title VDXIGRU_254031
Sample type RNA
 
Source name VDXIGRU_254031
Organism Homo sapiens
Characteristics samplename: VDXIGRU_254031
id: 254031
filename: 54-254031_IGRA.CEL.gz
hospital: IGR
age: 39
size: 2.3
Surgery_type: 0
Histtype: 1
Angioinv: NA
Lymp_infil: NA
node: 0
grade: 3
er: 1
t.rfs: 3853
e.rfs: 1
t.os: 5012
e.os: 0
t.dmfs: 5012
e.dmfs: 0
t.tdm: 5012
e.tdm: 0
risksg: 2
NPI: 4.46
risknpi: 2
AOL_os_10y: 74.5
risk_AOL: 1
veridex_risk: Poor
Extracted molecule total RNA
Extraction protocol Isolation of RNA was performed using the Trizol method (Invitrogen) according to the manufacturers instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the bioanalyzer (Agilent Inc)olation of RNA was performed using the Trizol method (Invitrogen) according to the manufacturers instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the bioanalyzer (Agilent Inc).
Label biotin
Label protocol Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
 
Hybridization protocol standard Affymetrix procedures.
Scan protocol standard Affymetrix procedures.
Description n/a
Data processing MAS5 Bioconductor (target value of 600).
 
Submission date Mar 28, 2007
Last update date Jun 11, 2007
Contact name Benjamin Haibe-Kains
E-mail(s) [email protected]
Phone +14165818626
Organization name Princess Margaret Cancer Centre
Department Princess Margaret Research
Lab Bioinformatics and Computational Genomics
Street address 610 University Avenue
City Toronto
State/province Ontario
ZIP/Postal code M5G 2M9
Country Canada
 
Platform ID GPL96
Series (1)
GSE7390 Strong Time Dependence of the 76-Gene Prognostic Signature

Data table header descriptions
ID_REF
VALUE MAS5 normalized signal intensity.

Data table
ID_REF VALUE
1007_s_at 12.76951875
1053_at 8.749540144
117_at 6.398898635
121_at 9.652291353
1255_g_at 3.351931622
1294_at 8.503625659
1316_at 6.837593741
1320_at 3.290771519
1405_i_at 9.990072564
1431_at 5.273085583
1438_at 7.089566967
1487_at 9.085778539
1494_f_at 7.589923877
1598_g_at 11.07723229
160020_at 8.406141656
1729_at 8.82357526
1773_at 7.4416469
177_at 6.954956259
179_at 7.992045404
1861_at 8.263180481

Total number of rows: 22283

Table truncated, full table size 496 Kbytes.




Supplementary file Size Download File type/resource
GSM177949.cel.gz 3.0 Mb (ftp)(http) CEL

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