Purpose: The majority of patients with early-stage breast cancer are treated with breastconserving therapy (BCT). Several clinical risk factors are associated with local recurrence (LR) after BCT but are unable to explain all instances of LR after BCT. Here, gene expression microarrays are used to identify novel risk factors for LR after BCT. Experimental Design: Gene expression profiles of 56 primary invasive breast carcinomas from patients who developed a LR after BCT were compared with profiles of 109 tumors from patients who did not develop a LR after BCT. Both unsupervised and supervised methods of classification were used to separate patients into groups corresponding to disease outcome. In addition, for 15 patients, the gene expression profile in the recurrence was compared with that of the primary tumor. Results: The two main clusters found by hierarchical cluster analysis of all 165 primary invasive breast carcinomas revealed no association with LR. Predefined gene sets (molecular subtypes and "chromosomal instability" signature) are associated with LR (P = 0.0002 and 0.003, respectively). Significant analysis of microarrays revealed an association between LR and cell proliferation, not captured by histologic grading. Class prediction analysis constructed a gene classifier, which was successfully validated, cross-platform, on an independent data set of 161 patients (log-rank P = 0.041). In multivariate analysis, young age was the only independent predictor of LR. Conclusions: We have constructed and cross-platform validated a gene expression profile predictive for LR after BCT, which is characterized by genes involved in cell proliferation but not a surrogate for high histologic grade.Local treatment for early-stage breast cancer can consist of mastectomy or breast-conserving therapy (BCT). Several randomized controlled trials have shown no difference in survival rates after BCT or mastectomy for stage I and II breast cancer (1-3). Unfortunately, BCT is associated with a higher rate of local recurrence (LR) compared with mastectomy (1-3). A LR rate of <1% per annum is generally considered as clinically acceptable for T1-2 N0-1 breast cancers. The choice for the primary treatment modality is therefore often based on risk factors for LR.Several of these risk factors for LR after BCT have been identified: involvement of the surgical margins by invasive carcinoma [hazard ratio (HR), 2.8-3.9] and/or extensive ductal carcinoma in situ (DCIS; HR, 2.5-4.2), vascular invasion (HR, 2.0-2.9), young age (HR, 2.4-9.2), and tumor multicentricity (HR,. The addition of a radiation boost after whole-breast irradiation and adjuvant systemic therapy reduces LR rates by 40% to 60%, especially in younger patients (9,11,16,17,19,20).The importance of preventing LR is illustrated by the updated analyses of the Early Breast Cancer Trialists' Collaborative Group showing that LR is associated with poorer survival (21) and by Voogd et al. (22) who suggest that early detection of LR could improve survival. Thus, robust r...