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| Status |
Public on Jan 29, 2013 |
| Title |
Genomic profiles vary with race and subtype in young African American and European American breast cancer (SNP) |
| Organism |
Homo sapiens |
| Experiment type |
SNP genotyping by SNP array
Genome variation profiling by SNP array
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| Summary |
In the United States, African-American (AA) women are more likely to develop early-onset breast cancer and have historically poorer outcomes due to this disease compared to European-American (EA) women. Here, we analyzed genomic profiles of breast tumors from young women (<50 years old), matched by tumor subtype, histological grade, and ethnicity (African-American, AA, compared to European-American, EA). DNA copy number alterations (CNAs) were analyzed on the Affymetrix Human SNP Array v 6.0 platform. The study provides insight into the genetic component of ethnicity-related breast cancer health disparities.
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| Overall design |
DNA copy number alterations (CNAs) and genotypes were analyzed using the Affymetrix SNP 6.0 platform.
Breast tumor samples from young women (< 50 years old) were matched as follows: a matched pair consists of one AA and one EA sample, matched for tumor grade and tumor subtype (based on immunohistochemical analysis of ER, PR, and HER2 status). DNA from forty-four samples (22 AA, 22 EA) was analyzed on the Affymetrix SNP 6.0 array according to manufacturer’s directions.
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| Contributor(s) |
Farmer TL, Strong TV |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Dec 21, 2010 |
| Last update date |
Nov 27, 2018 |
| Contact name |
Theresa V Strong |
| E-mail(s) |
tvstrong@uab.edu
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| Phone |
205-975-9878
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| Fax |
205-934-9511
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| Organization name |
University of Alabama at Birmingham
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| Department |
Medicine
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| Lab |
Strong
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| Street address |
1530 3rd Avenue South
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| City |
Birmingham |
| State/province |
AL |
| ZIP/Postal code |
35294 |
| Country |
USA |
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| Platforms (1) |
| GPL6801 |
[GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array |
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| Samples (49)
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| This SubSeries is part of SuperSeries: |
| GSE26233 |
Genomic profiles vary with race and subtype in young African American and European American breast cancer |
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| Relations |
| BioProject |
PRJNA142335 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE26232_ EA_CNV_HER2+ER-_898.txt.gz |
22.1 Kb |
(ftp)(http) |
TXT |
| GSE26232_ EA_CNV_LumA_AAnormal_1195.txt.gz |
27.7 Kb |
(ftp)(http) |
TXT |
| GSE26232_AA_CNV_HER2+ER-_AAnormal_191.txt.gz |
5.2 Kb |
(ftp)(http) |
TXT |
| GSE26232_AA_CNV_LumA_AAnormal_15886.txt.gz |
341.8 Kb |
(ftp)(http) |
TXT |
| GSE26232_AA_CNV_LumB_AAnormal_1055.txt.gz |
25.5 Kb |
(ftp)(http) |
TXT |
| GSE26232_AA_CNV_basal_AAnormal_33442.txt.gz |
721.8 Kb |
(ftp)(http) |
TXT |
| GSE26232_EA_CNV_LumB_AAnormal_924.txt.gz |
22.3 Kb |
(ftp)(http) |
TXT |
| GSE26232_EA_CNV_basal_AAnormal_8427.txt.gz |
176.0 Kb |
(ftp)(http) |
TXT |
| GSE26232_RAW.tar |
2.0 Gb |
(http)(custom) |
TAR (of CEL, CHP) |
| GSE26232_SampleID_for_CNAcalls.txt.gz |
268 b |
(ftp)(http) |
TXT |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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