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Sample GSM250013 Query DataSets for GSM250013
Status Public on Mar 18, 2008
Title VB1372
Sample type RNA
 
Source name Breast primary tumor
Organism Homo sapiens
Characteristics status: RF
age: 52.7
adjuvant therapy: X-ray+Tam
histological type: IDC
sbr grade: 2
tumor size (mm): 15
pt (tnm): pT1
lymph node checked: 2
n+: 0
n dich+: 0
pn (tnm): pN0
ER 125
pr: 224
follow-up period (months): 56.1
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 4.97381414791991
2 3.32778761282683
3 1.02081847150755
4 1.30505427632297
5 2.86260131946372
6 -0.902702798645085
7 1.44101398500756
8 0.437921389952182
9 -1.72582503656101
10 4.514415893722
11 0.708161565518828
12 -2.14086253583985
13 -1
14 1.42548428671396
15 0.281094377378785
16 2.44409996488131
17 0.18844508941311
18 -1.56828375957453
19 -2.21681138907315
20 2.02081847150755

Total number of rows: 22656

Table truncated, full table size 509 Kbytes.




Supplementary file Size Download File type/resource
GSM250013.gpr.gz 947.0 Kb (ftp)(http) GPR
Processed data included within Sample table

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