NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM250012 Query DataSets for GSM250012
Status Public on Mar 18, 2008
Title VB1362
Sample type RNA
 
Source name Breast primary tumor
Organism Homo sapiens
Characteristics status: RF
age: 82.7
adjuvant therapy: X-ray+Tam
histological type: Other
sbr grade: 1
tumor size (mm): 17
pt (tnm): pT1
lymph node checked: 3
n+: 0
n dich+: 0
pn (tnm): pN0
ER 63
pr: 415
follow-up period (months): 56.4
local recurrence: no
distant metastases: no
time before recurrence (months):
state of health: alive
death cause:
decease delay upon recurrence (months):
decease delay after surgery (months):
Extracted molecule total RNA
Extraction protocol Frozen breast tumors (40 mg) were homogenized using the FastPrep System from Q-Biogene. Total RNA was extracted and cleaned up from the lysate with use of the Qiagen RNeasy Mini Kit. The RNA purity and integrity was controlled by way of the Bioanalyser 2100 (Agilent).
Label Cy5
Label protocol For each sample, 2 µg of total RNA was reverse-transcribed and amplified by using the RNA amplification kit from Ambion. Fifteen µg of amplified RNA were labelled by direct chemical coupling to the Cy5 NHS ester (Amersham Biosciences).
 
Hybridization protocol Labelled RNAs were purified, fragmented and used as probes to hybridize microarrays.
Scan protocol Fluorescent images of hybridized microarrays were obtained with Axon 4000B scanner and analyzed using Genepix 6.0. The mean of replicated spots was calculated for each gene by using the Acuity 4.0 software.
Description Tumor samples from Tamoxifen-only treated primary breast cancer patients.
Data processing Data were median centered and log2 transformed.
 
Submission date Dec 14, 2007
Last update date Oct 08, 2015
Contact name Vincent Negre
E-mail(s) vincent.negre@valdorel.fnclcc.fr
Organization name INSERM
Department U896
Street address IRCM CRLC Val d'aurelle
City Montpellier
ZIP/Postal code 34298
Country France
 
Platform ID GPL5049
Series (1)
GSE9893 A gene expression signature predicting the recurrence of tamoxifen-treated primary breast cancer.

Data table header descriptions
ID_REF
VALUE log F635 norm

Data table
ID_REF VALUE
1 4.76339900201899
2 2.73354688393874
3 2.02538531841991
4 1.49393832702576
5 2.23936549994016
6 0.450869605133873
7 2.7640274903935
8 1.26445648090299
9 0.278600663223262
10 2.99679519666608
11 1.31679698678421
12 -0.124755031007947
13 0.106915203916512
14 0.823122237915921
15 0.803691707967019
16 2.23393161388953
17 0.306479695798699
18 -0.0433274316641007
19 -0.271596419337218
20 0.995725344899674

Total number of rows: 22656

Table truncated, full table size 515 Kbytes.




Supplementary file Size Download File type/resource
GSM250012.gpr.gz 973.6 Kb (ftp)(http) GPR
Processed data included within Sample table

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