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Supplementary Table S5 from EN1 Is a Transcriptional Dependency in Triple-Negative Breast Cancer Associated with Brain Metastasis

dataset

posted on 2023-03-31, 02:46 authored by Guillermo Peluffo, Ashim Subedee, Nicholas W. Harper, Natalie Kingston, Bojana Jovanović, Felipe Flores, Laura E. Stevens, Francisco Beca, Anne Trinh, Chandra Sekhar Reddy Chilamakuri, Evangelia K. Papachristou, Katherine Murphy, Ying Su, Andriy Marusyk, Clive S. D'Santos, Oscar M. Rueda, Andrew H. Beck, Carlos Caldas, Jason S. Carroll, Kornelia Polyak

List of TLE3 and beta-catenin peaks in SUM149 and SUM159 cells.

Funding

NCI

History

ARTICLE ABSTRACT

To define transcriptional dependencies of triple-negative breast cancer (TNBC), we identified transcription factors highly and specifically expressed in primary TNBCs and tested their requirement for cell growth in a panel of breast cancer cell lines. We found that EN1 (engrailed 1) is overexpressed in TNBCs and its downregulation preferentially and significantly reduced viability and tumorigenicity in TNBC cell lines. By integrating gene expression changes after EN1 downregulation with EN1 chromatin binding patterns, we identified genes involved in WNT and Hedgehog signaling, neurogenesis, and axonal guidance as direct EN1 transcriptional targets. Quantitative proteomic analyses of EN1-bound chromatin complexes revealed association with transcriptional repressors and coactivators including TLE3, TRIM24, TRIM28, and TRIM33. High expression of EN1 correlated with short overall survival and increased risk of developing brain metastases in patients with TNBC. Thus, EN1 is a prognostic marker and a potential therapeutic target in TNBC. These findings show that the EN1 transcription factor regulates neurogenesis-related genes and is associated with brain metastasis in triple-negative breast cancer.