Identification of functional non-coding RNAs in Human Breast Cancer

NIH RePORTER · NIH · F32 · $68,562 · view on reporter.nih.gov ↗

Abstract

Project Summary/Abstract Aggressive receptor triple-negative breast cancers (TNBCs) lack effective biomarkers or targeted treatments, posing a major clinical challenge. Examination of primary clinical data from the multi-institutional ISPY trial found that elevated MYC oncogene expression is a strong indicator of lethal TNBC. A growing body of work suggests that non-coding RNAs may play an essential role in MYC dependent pathologies, however which of these may be essential for survival and progress of MYC-driven tumors remains unknown. This proposal will address the discovery of mechanisms that determine the initiation, risk, and susceptibility for the most deadly type of breast cancer, basal-like or triple negative breast cancer (TNBC) and the identification of new mediators of lethality that could lead to tumor regression when blocked. We will test the hypothesis that MYC-dependent microRNAs ​in vivo and circular RNAs are required for breast tumor formation, maintenance and recurrence. In an ​unbiased ​in vitro screen of ​~1000 individual locked nucleic acid (LNA) microRNA antagonists (antimiRs) we identified 13 miRNAs that are required for MYC-dependent cancer progression ​in human mammary epithelial cells (HMEC) and are highly expressed in “high Myc” breast cancers from the TCGA dataset​. We found that putative oncogenic circPVT1 had significantly up-regulated expression in MYC-high TNBC cell line HCC1143 relative to MYC-low T47D breast cancer cells. Thus, we will sequence and functionally validate Myc dependent miRNAs and circRNAs in these studies. The long-term goal is to identify critical non-coding RNA targets whose inhibition can block TNBC tumor growth. ​Aim 1: ​Target​ ​MYC-driven​​ ​miRNA vulnerabilities​ ​​in​ ​vivo​​: ​We will test the ​in vivo ​efficacy of antimiRs conjugated to folate via RNA nanoparticles targeting ​miR-16, miR-23, miR-107 and miR-144 using a conditional MYC-driven transgenic model of breast cancer. Aim 2: ​​​Show ​​circRNAs are​ ​required​ ​for​ ​MYC​ ​driven​ ​breast cancer: ​We plan to determine the functional consequences of perturbing Myc-dependent circRNAs in human and mouse breast cancer using lenti-shRNA and circRNA overexpression in ​a high throughput screen. ​My goal is to become a principal investigator pursuing an independent research program focused on deciphering the disease mechanisms of breast cancer. ​UCSF is an ideal environment to pursue an interdisciplinary approach to breast cancer research. Completion of the work proposed will allow me to develop skills and a collaborative network necessary to compete for tenure track principal investigator positions. This proposal will address the discovery of non-coding RNA mechanisms that determine the initiation, risk, and susceptibility for the most deadly type of breast cancer, basal-like or triple negative breast cancer (TNBC) and the identification of new drivers that could lead to tumor regression when blocked.

Key facts

NIH application ID
10070588
Project number
5F32CA236411-03
Recipient
UNIVERSITY OF CALIFORNIA, SAN FRANCISCO
Principal Investigator
Matthew Robert Gruner
Activity code
F32
Funding institute
NIH
Fiscal year
2021
Award amount
$68,562
Award type
5
Project period
2018-12-03 → 2021-12-02