Application of RNAi-induced gene expression profiles for prognostic prediction in breast cancer

Genome Medicine

Kenneth M. K. Mark¹  Matthew H. Ung¹  Todd Miller¹  Chao Cheng¹  Arminja Kettenbach²  Wei Xu³  Wenqing Cheng³  Tian Xia³  Yue Wang³ 

[1] Department of Molecular and Systems Biology, Geisel School of Medicine at Dartmouth;Norris Cotton Cancer Center, Geisel School of Medicine at Dartmouth;School of Electronic Information and Communications, Huazhong University of Science and Technology;

关键词: Homologous recombination pathway;    Gene knockdown profiles;    Cell proliferation;    Cancer prognosis;    Neoadjuvant chemotherapy;    Genomic instability;   

DOI  :  10.1186/s13073-016-0363-3

来源: DOAJ

【 摘 要 】

Abstract Homologous recombination (HR) is the primary pathway for repairing double-strand DNA breaks implicating in the development of cancer. RNAi-based knockdowns of BRCA1 and RAD51 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.

【 授权许可】

Unknown