Identification of a robust gene signature that predicts breast cancer outcome in independent data sets

James Korkola, Ekaterina Blaveri, Sandy DeVries, Dan H. Moore, E. Shelley Hwang, Yunn Yi Chen, Anne L H Estep, Karen L. Chew, Ronald H. Jensen, Frederic M. Waldman

Research output: Contribution to journalArticle

32 Citations (Scopus)

Abstract

Background: Breast cancer is a heterogeneous disease, presenting with a wide range of histologic, clinical, and genetic features. Microarray technology has shown promise in predicting outcome in these patients. Methods: We profiled 162 breast tumors using expression microarrays to stratify tumors based on gene expression. A subset of 55 tumors with extensive follow-up was used to identify gene sets that predicted outcome. The predictive gene set was further tested in previously published data sets. Results: We used different statistical methods to identify three gene sets associated with disease free survival. A fourth gene set, consisting of 21 genes in common to all three sets, also had the ability to predict patient outcome. To validate the predictive utility of this derived gene set, it was tested in two published data sets from other groups. This gene set resulted in significant separation of patients on the basis of survival in these data sets, correctly predicting outcome in 62-65% of patients. By comparing outcome prediction within subgroups based on ER status, grade, and nodal status, we found that our gene set was most effective in predicting outcome in ER positive and node negative tumors. Conclusion: This robust gene selection with extensive validation has identified a predictive gene set that may have clinical utility for outcome prediction in breast cancer patients.

Original languageEnglish (US)
Article number61
JournalBMC Cancer
Volume7
DOIs
StatePublished - Apr 11 2007
Externally publishedYes

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Breast Neoplasms
Genes
Datasets
Neoplasms
Disease-Free Survival
Technology
Gene Expression
Survival

ASJC Scopus subject areas

  • Oncology
  • Cancer Research

Cite this

Korkola, J., Blaveri, E., DeVries, S., Moore, D. H., Hwang, E. S., Chen, Y. Y., ... Waldman, F. M. (2007). Identification of a robust gene signature that predicts breast cancer outcome in independent data sets. BMC Cancer, 7, [61]. https://doi.org/10.1186/1471-2407-7-61

Identification of a robust gene signature that predicts breast cancer outcome in independent data sets. / Korkola, James; Blaveri, Ekaterina; DeVries, Sandy; Moore, Dan H.; Hwang, E. Shelley; Chen, Yunn Yi; Estep, Anne L H; Chew, Karen L.; Jensen, Ronald H.; Waldman, Frederic M.

In: BMC Cancer, Vol. 7, 61, 11.04.2007.

Research output: Contribution to journalArticle

Korkola, J, Blaveri, E, DeVries, S, Moore, DH, Hwang, ES, Chen, YY, Estep, ALH, Chew, KL, Jensen, RH & Waldman, FM 2007, 'Identification of a robust gene signature that predicts breast cancer outcome in independent data sets', BMC Cancer, vol. 7, 61. https://doi.org/10.1186/1471-2407-7-61
Korkola, James ; Blaveri, Ekaterina ; DeVries, Sandy ; Moore, Dan H. ; Hwang, E. Shelley ; Chen, Yunn Yi ; Estep, Anne L H ; Chew, Karen L. ; Jensen, Ronald H. ; Waldman, Frederic M. / Identification of a robust gene signature that predicts breast cancer outcome in independent data sets. In: BMC Cancer. 2007 ; Vol. 7.
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