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Sample GSM1100045 Query DataSets for GSM1100045
Status Public on Mar 21, 2013
Title NUH.BT035
Sample type RNA
Source name Breast tumor
Organism Homo sapiens
Characteristics ln status: LN-
er status: ER-
pgr status: PgR-
her2 status: He+
histological grade: G2
size (mm): 15
patient age: 46
histology: invasive ductal carcinoma
adjuvant treated? (0=no, 1=yes): 0
characteristics: endocrine? (0=no, 1=yes): 0
chemo? (0=no, 1=yes): 0
treatment type: none
dfs time: 4.04
dfs event (defined as any type of recurrence or death from breast cancer): 0
dmfs time: 4.04
dmfs event (defined as distant metastasis or death from breast cancer): 0
DSS time: 4.08
dss event (defined as death from breast cancer): 0
Extracted molecule total RNA
Extraction protocol Tumor specimens from the IJB and JRH we processed and profiled at the IJB (Christos Sotiriou). Specimens from the NUH were processed and profiled at the Genome Institute of Singapore. Total RNA was extracted from fozen tumor specimens by the Trizol method, cleaned on Qiagen RNeasy columns and analyzed for integrity on the Agilent Bioanalyzer.
Label biotin
Label protocol Five micrograms of total RNA was used to generate cRNA (target) according to the standard Affymetrix (3' IVT) protocol.
Hybridization protocol The standard Affymetrix GeneChip hyridization protocol was followed.
Scan protocol The standard Affymetrix GeneChip scanning protocol was followed.
Description SIN_BT035
included in study population (n=1,954) of Nagalla, et. al., Genome Biology, 2013
reanalysis of:
Data processing The raw data were normalized by using MAS5 and batch-corrected by using Combat
Submission date Mar 18, 2013
Last update date Jun 06, 2022
Contact name Jeff Chou
Phone 3367572617
Organization name Atrium Health Wake Forest Baptist
Street address Medical Center Blvd
City Winston-Salem
State/province NC
ZIP/Postal code 27157
Country USA
Platform ID GPL96
Series (1)
GSE45255 Expression Profiles of Breast Tumors from Singapore and Europe
Reanalysis of GSM119946

Data table header descriptions
VALUE Normalized log2 intensity

Data table
1007_s_at 11.0112
1053_at 7.6541
117_at 7.708
121_at 9.1158
1255_g_at 4.6703
1294_at 8.8147
1316_at 6.8878
1320_at 6.2617
1405_i_at 10.1464
1431_at 5.4677
1438_at 7.7711
1487_at 8.4071
1494_f_at 6.9387
1598_g_at 10.9853
160020_at 10.3591
1729_at 9.7121
177_at 6.9243
1773_at 7.1469
179_at 8.6896
1861_at 8.0476

Total number of rows: 22268

Table truncated, full table size 390 Kbytes.

Supplementary file Size Download File type/resource
GSM1100045_GSM119946.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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