Application of RNAi-induced gene expression profiles for prognostic prediction in breast cancer. Issue 1 (December 2016)

• Record Type: Journal Article
• Authors: Wang, Yue; Mark, Kenneth; Ung, Matthew; Kettenbach, Arminja; Miller, Todd; Xu, Wei; Cheng, Wenqing; Xia, Tian; Cheng, Chao
• Is Part Of: Genome medicine. Volume 8:Issue 1(2016)
• Page Start: 1
• Page End: 15
• Publication Date: 2016-12
• Subjects: Homologous recombination pathway -- Gene knockdown profiles -- Cell proliferation -- Cancer prognosis -- Neoadjuvant chemotherapy -- Genomic instability; Genomics -- Periodicals; Medical genetics -- Periodicals; 616.042
• DOI: 10.1186/s13073-016-0363-3
• Languages: English
• ISSNs: 1756-994X

Abstract

Abstract Homologous recombination (HR) is the primary pathway for repairing double-strand DNA breaks implicating in the development of cancer. RNAi-based knockdowns ofBRCA1 andRAD51 in this pathway have been performed to investigate the resulting transcriptomic profiles. Here we propose a computational framework to utilize these profiles to calculate a score, named RNA-Interference derived Proliferation Score (RIPS), which reflects cell proliferation ability in individual breast tumors. RIPS is predictive of breast cancer classes, prognosis, genome instability, and neoadjuvant chemosensitivity. This framework directly translates the readout of knockdown experiments into potential clinical applications and generates a robust biomarker in breast cancer.