Research article
Classification and risk stratification of invasive breast carcinomas using a real-time quantitative RT-PCR assay
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* Corresponding author: Philip S Bernard phil.bernard@hci.utah.edu
1 The ARUP Institute for Clinical and Experimental Pathology, SLC, Utah, USA
2 Department of Genetics and Department of Pathology & Laboratory Sciences, Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina, USA
3 Department of Pathology, University of Utah School of Medicine, SLC, Utah, USA
4 Department of Surgery, University of Utah School of Medicine, SLC, Utah, USA
5 Department of Internal Medicine, University of Utah School of Medicine, SLC, Utah, USA
6 Department of Clinical Genetics, Maine Center for Cancer Medicine, Scarborough, Maine, USA
7 Department of Pathology, Thomas Jefferson University, Philadelphia, Pennsylvania, USA
8 Constella Health Sciences, Durham, North Carolina, USA
9 Department of Medicine, University of Chicago, Illinois, USA
10 Department of Oncological Sciences, Huntsman Cancer Institute, SLC, Utah, USA
Breast Cancer Research 2006, 8:R23 doi:10.1186/bcr1399
Published: 20 April 2006Additional files
Additional File 2:
Supplemental Table 1. Clinical data for the 123-sample set prospectively analyzed by microarray and qRT-PCR Supplemental Table 2. Primer sets and gene ID Supplemental Table 3. Gene copy number relative to the reference RNA Supplemental Table 4. Forty-five paired samples for intrinsic analysis from Sorlie et al. 2003 Supplemental Table 5. Correlating classifier genes with RFS and grade using qRT-PCR assay Supplemental Table 6. Relapse free survival multivariate analyses using qRT-PCR data Supplemental Table 7. Overall survival multivariate analyses using qRT-PCR data Supplemental Table 8. Relapse free survival multivariate analyses using microarray data from NKI Supplemental Table 9. Overall survival multivariate analyses using microarray data from NKI
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Additional File 1:
Supplemental Figure 1: Hierarchical clustering of Utah sample set using 'intrinsic' genes from Sorlie and colleagues (PNAS 2003). Supplemental Figure 2: Receiver Operator Curves comparing gene expression by qRT-PCR to protein expression by immunohistochemistry. Supplemental Figure 3: Kaplan-Meier plots showing survival differences between intrinsic subtypes as determined by qRT-PCR. Supplemental Figure 4: Kaplan-Meier plots showing that proliferation provides additional risk stratification only for Luminal tumors. Supplemental Figure 5: Kaplan-Meier plots showing that proliferation provides additional risk stratification only for ER-positive tumors.
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