Integrative analyses identify modulators of response to neoadjuvant aromatase inhibitors in patients with early breast cancer

López-Knowles, E., Wilkerson, P., Ribas, R., Anderson, H., Mackay, A., Ghazoui, Z., Rani, A., Osin, P., Nerurkar, A., Renshaw, L., Larionov, A., Miller, W., Dixon, J., Reis-Filho, J., Dunbier, A., Martin, L. and Dowsett, M. 2015. Integrative analyses identify modulators of response to neoadjuvant aromatase inhibitors in patients with early breast cancer. Breast Cancer Research. 17, p. 35 35. https://doi.org/10.1186/S13058-015-0532-0

TitleIntegrative analyses identify modulators of response to neoadjuvant aromatase inhibitors in patients with early breast cancer
TypeJournal article
AuthorsLópez-Knowles, E., Wilkerson, P., Ribas, R., Anderson, H., Mackay, A., Ghazoui, Z., Rani, A., Osin, P., Nerurkar, A., Renshaw, L., Larionov, A., Miller, W., Dixon, J., Reis-Filho, J., Dunbier, A., Martin, L. and Dowsett, M.
Abstract

Introduction
Aromatase inhibitors (AIs) are a vital component of estrogen receptor positive (ER+) breast cancer treatment. De novo and acquired resistance, however, is common. The aims of this study were to relate patterns of copy number aberrations to molecular and proliferative response to AIs, to study differences in the patterns of copy number aberrations between breast cancer samples pre- and post-AI neoadjuvant therapy, and to identify putative biomarkers for resistance to neoadjuvant AI therapy using an integrative analysis approach.

Methods
Samples from 84 patients derived from two neoadjuvant AI therapy trials were subjected to copy number profiling by microarray-based comparative genomic hybridisation (aCGH, n = 84), gene expression profiling (n = 47), matched pre- and post-AI aCGH (n = 19 pairs) and Ki67-based AI-response analysis (n = 39).

Results
Integrative analysis of these datasets identified a set of nine genes that, when amplified, were associated with a poor response to AIs, and were significantly overexpressed when amplified, including CHKA, LRP5 and SAPS3. Functional validation in vitro, using cell lines with and without amplification of these genes (SUM44, MDA-MB134-VI, T47D and MCF7) and a model of acquired AI-resistance (MCF7-LTED) identified CHKA as a gene that when amplified modulates estrogen receptor (ER)-driven proliferation, ER/estrogen response element (ERE) transactivation, expression of ER-regulated genes and phosphorylation of V-AKT murine thymoma viral oncogene homolog 1 (AKT1).

Conclusions
These data provide a rationale for investigation of the role of CHKA in further models of de novo and acquired resistance to AIs, and provide proof of concept that integrative genomic analyses can identify biologically relevant modulators of AI response.

Article number35
JournalBreast Cancer Research
Journal citation17, p. 35
ISSN1465-5411
Year2015
PublisherBMC
Publisher's version
License
CC BY 4.0
File Access Level
Open (open metadata and files)
Digital Object Identifier (DOI)https://doi.org/10.1186/S13058-015-0532-0
Publication dates
Published11 Mar 2015

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