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Sample GSM782526 Query DataSets for GSM782526
Status Public on Sep 13, 2011
Title Triple-negative breast cancer_004
Sample type RNA
 
Source name primary breast cancer tissue
Organism Homo sapiens
Characteristics tissue: triple-negative breast cancer
lymph node status (0: negative, 1: positive): 0
cohort: HH
biopsy type (1: surgical, 2: core needle): 1
chemotherapy treatment (yes/no): NO
neoadjuvant chemotherapy (yes/no): NO
Treatment protocol Samples were snap frozen and stored at -80°C.
Extracted molecule total RNA
Extraction protocol Qiagen RNeasy kit according to the manufacturer's instructions.
Label biotin
Label protocol Starting from 5 µg total RNA, labeled cRNA was prepared using the Roche Microarray cDNA Synthesis, Microarray RNA Target Synthesis (T7) and Microarray Target Purification Kits according to the manufacturer's instructions.
 
Hybridization protocol Following fragmentation, 15 µg of cRNA were hybridized for 16 hr at 45°C on the GeneChip HG-U133A 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 TNBC_004
Gene expression data from primary breast tumors.
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
 
Submission date Aug 18, 2011
Last update date Sep 23, 2011
Contact name Thomas Karn
E-mail(s) t.karn@em.uni-frankfurt.de
Organization name J.W.Goethe-University
Street address Theodor-Stern-Kai 7
City Frankfurt
ZIP/Postal code 60590
Country Germany
 
Platform ID GPL96
Series (1)
GSE31519 A Clinically Relevant Gene Signature in Triple-Negative and Basal-Like Breast Cancer

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity

Data table
ID_REF VALUE
1007_s_at 2495
1053_at 218.8
117_at 178.4
121_at 478.7
1255_g_at 51.8
1294_at 448.9
1316_at 145
1320_at 49.4
1405_i_at 1900.7
1431_at 23.5
1438_at 249.5
1487_at 411.4
1494_f_at 107
1598_g_at 2078.2
160020_at 2137
1729_at 701
177_at 81.9
1773_at 83.5
179_at 356.8
1861_at 255.9

Total number of rows: 22283

Table truncated, full table size 357 Kbytes.




Supplementary file Size Download File type/resource
GSM782526.CEL.gz 3.3 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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