|
| Status |
Public on Jul 19, 2011 |
| Title |
Systematic Bias in Genomic Classification Due to Contaminating Normal Tissue in Breast Tumor Samples |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
|
| Summary |
Results: Normal tissue contamination caused misclassification of tumors in all predictors, but different breast cancer predictors showed different susceptibility to normal tissue bias. Sensitivity and negative predictive value (NPV) of the PAM50 assay was improved by accounting for normal tissue.
Conclusions: Normal tissue sampled concurrently with tumor tissue is an important source of bias in genomic predictors. Adjustments for normal tissue contamination could improve the application of breast cancer genomic predictors in both research and in clinical settings.
|
| |
|
| Overall design |
Reference x breast tumor samples.
|
| |
|
| Contributor(s) |
Elloumi F, Troester MA |
| Citation(s) |
21718502 |
| |
| Submission date |
Jun 16, 2010 |
| Last update date |
Feb 22, 2018 |
| Contact name |
Melissa Troester |
| E-mail(s) |
[email protected]
|
| Organization name |
University of North Carolina at Chapel Hill
|
| Department |
Epidemiology
|
| Street address |
135 Dauer Drive, CB 7435
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599 |
| Country |
USA |
| |
|
| Platforms (4)
|
| GPL4133 |
Agilent-014850 Whole Human Genome Microarray 4x44K G4112F (Feature Number version) |
| GPL8264 |
UNC PerouLab 244K Custom Human Array version 3 |
| GPL8269 |
UNC PerouLab 244K Custom Human Array version 5 |
| GPL8274 |
UNC PerouLab 244K Custom Human Array version 3 with barcode-15847 |
|
| Samples (118)
|
|
| Relations |
| BioProject |
PRJNA127631 |
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