Identification of novel dysregulated circular RNAs in early-stage breast cancer.

Affiliation

Rao AKDM(1), Arvinden VR(1), Ramasamy D(1), Patel K(2)(3), Meenakumari B(1), Ramanathan P(1), Sundersingh S(4), Sridevi V(5), Rajkumar T(1), Herceg Z(6), Gowda H(2)(3)(7)(8), Mani S(1).
Author information:
(1)Department of Molecular Oncology, Cancer Institute
(WIA), Chennai, India.
(2)Institute of Bioinformatics, ITPL, Bangalore, India.
(3)Amrita School of Biotechnology, Amrita Vishwa Vidyapeetham, Kollam, India.
(4)Department of Oncopathology, Cancer Institute
(WIA), Chennai, India.
(5)Department of Surgical Oncology, Cancer Institute
(WIA), Chennai, India.
(6)Epigenetics Group, International Agency for Research on Cancer
(IARC), Lyon, France.
(7)Manipal Academy of Higher Education
(MAHE), Manipal, India.
(8)QIMR Berghofer, Royal Brisbane Hospital QLD, Brisbane, Qld, Australia.

Abstract

Breast cancer is a major cause of cancer-related death in women worldwide. Non-coding RNAs are a potential resource to be used as an early diagnostic biomarker for breast cancer. Circular RNAs are a recently identified group of non-coding RNA with a significant role in disease development with potential utility in diagnosis/prognosis in cancer. In this study, we identified 26 differentially expressed circular RNAs associated with early-stage breast cancer. RNA sequencing and two circRNA detection tools (find_circ and DCC) were used to understand the circRNA expression signature in breast cancer. We identified hsa_circ_0006743 (circJMJD1C) and hsa_circ_0002496 (circAPPBP1) to be significantly up-regulated in early-stage breast cancer tissues. Co-expression analysis identified four pairs of circRNA-miRNA (hsa_circ_0023990 : hsa-miR-548b-3p, hsa_circ_0016601 : hsa_miR-1246, hsa_circ_0001946 : hsa-miR-1299 and hsa_circ_0000117:hsa-miR-502-5p) having potential interaction. The miRNA target prediction and network analysis revealed mRNA possibly regulated by circRNAs. We have thus identified circRNAs of diagnostic implications in breast cancer and also observed circRNA-miRNA interaction which could be involved in breast cancer development.