Research article
Gene expression profiling and histopathological characterization of triple-negative/basal-like breast carcinomas
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* Corresponding author: Marc J van de Vijver m.vd.vijver@nki.nl
1 Division of Radiation Oncology, The Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands
2 Division of Experimental Therapy, The Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands
3 Division of Diagnostic Oncology, The Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands
Breast Cancer Research 2007, 9:R65 doi:10.1186/bcr1771
See related letters by Rakha et al., http://breast-cancer-research.com/content/9/6/404 and Kreike et al., http://breast-cancer-research.com/content/9/6/405
Published: 2 October 2007Additional files
Additional file 1:
Figure showing hierarchical cluster analysis with 97 triple-negative tumors combined with 102 invasive breast carcinomas, which were not selected on the basis of their triple-negative status, using the 293 intrinsic-gene list.
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Additional file 2:
A figure showing (a) hierarchical cluster analysis of 97 triple-negative tumors and 7,770 genes. Gene clusters as described in the text are indicated with colors on the right representing the position of the cluster, which are in part presented in parts b-h. (b) Immunoglobulin cluster. (c) Interferon-regulated cluster. (d) Keratin cluster. (e) Proliferation cluster. (f) Ion transporter activity cluster. (g) Apocrine-basal cluster. (h) Apocrine-luminal cluster.
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Additional file 3:
A figure showing the Kaplan-Meier curve of distant-metastasis-free survival in 71 patients with triple-negative breast tumors.
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Additional file 4:
Table showing the results of the supervised analysis using SAM software of 71 triple-negative tumors.
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Additional file 5:
A figure showing validation of the Rotterdam ER-negative prognosis signature. (a) Hierarchical cluster analysis of 71 triple-negative tumors with the 16-prognosis-gene signature as described by Wang et al. [14]. The black and white bar between the tumor dendogram and the gene-expression matrix represents tumors that develop distant metastases (black box) and those that remain metastasis free (white box). (b) Metastasis-free survival of 71 patients with triple-negative breast carcinomas, comparing the left branch to the right branch of the hierarchical cluster analysis as depicted in part a.
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