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Sample GSM152341 Query DataSets for GSM152341
Status Public on Mar 10, 2007
Title 05T
Sample type RNA
 
Source name Mammary gland from patient with human breast cancer
Organism Homo sapiens
Characteristics Human breast cancer
Extracted molecule total RNA
Extraction protocol TRIzol extraction of total RNA was performed according to the manufacturer's instructions (Life Technologies).
Label Biotin
Label protocol cRNA was amplified from 1-2 µg of total RNA using the small sample labeling version II protocol (Affymetrix, Santa Clara, CA).
 
Hybridization protocol Following fragmentation, the cRNA was hybridized for 16 hr at 45C on GeneChip® Human Genome U133A Array. Washing steps for the chip, staining with streptavidin-phycoerythrin and signal-amplification were performed according to the manufacturer’s instructions.
Scan protocol Each hybridized Affymetrix GeneChip array was scanned with GeneChip Scanner 2500.
Description Age at diagnosis: 68, Histology: IDC, Tumor stage: 1, Tumor grade: 2
Data processing The raw experimental microarray data were normalized with the Affymetrix GeneChip analysis software (Microarray Suite Version 5.0). Further analyses were performed with the software “CorrXpression”.
 
Submission date Dec 21, 2006
Last update date Mar 09, 2007
Contact name Andreas Klein
E-mail(s) andreas.klein@charite.de
Phone +49 30 450 528087
Fax +49 30 450 52945
URL http://www.charite.de/molbiol/bioinf/tumbiol/
Organization name Charité (CCO)
Department Institute of Biochemistry
Street address Charitéplatz 1
City Berlin
ZIP/Postal code 10117
Country Germany
 
Platform ID GPL96
Series (2)
GSE6596 Comparison of gene expression data from human and mouse breast cancers: Identification of conserved breast tumor genes
GSE6772 Comparison of gene expression data from human and mouse breast cancers

Data table header descriptions
ID_REF GPL96
VALUE The data were analyzed with Microarray Suite version 5.0 (MAS 5.0)
ABS_CALL The call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
1007_s_at 606.3 P 0.001892
1053_at 74 P 0.019304
117_at 40.7 A 0.250724
121_at 360.6 P 0.019304
1255_g_at 30.2 A 0.081337
1294_at 302 P 0.000562
1316_at 66.9 P 0.011447
1320_at 29 A 0.5
1405_i_at 29.3 P 0.036797
1431_at 27.4 A 0.150527
1438_at 14.3 A 0.438361
1487_at 115.3 A 0.302547
1494_f_at 91 A 0.150527
1598_g_at 523 P 0.00418
160020_at 195.1 P 0.021866
1729_at 158.3 P 0.011447
177_at 33.8 A 0.07383
1773_at 85.1 A 0.07383
179_at 237.6 P 0.048995
1861_at 40.8 A 0.204022

Total number of rows: 22283

Table truncated, full table size 585 Kbytes.




Supplementary file Size Download File type/resource
GSM152341.CEL.gz 3.6 Mb (ftp)(http) CEL

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