In Silico Prediction for Regulation of Transcription Factors on Their Shared Target Genes Indicates Relevant Clinical Implications in a Breast Cancer Population

Li-Yu D Liu ； Li-Yun Chang ； Wen-Hung Kuo ； Hsiao-Lin Hwa ； Ming-Kwang Shyu ； King-Jen Chang ； Fon-Jou Hsieh

《Cancer Informatics》 2012期 (2012/12) Pp. 113-136

https://doi.org/10.4137/CIN.S8470

並列摘要

Aberrant transcriptional activities have been documented in breast cancers. Studies often find some transcription factors to be inappropriately regulated and enriched in certain pathological states. The promoter regions of most target genes have binding sites for their transcription factors. An ample of evidence supports their combinatorial effect on their shared target gene expressions. Here, we used a new statistic method, bivariate CID, to predict combinatorial interaction activity between ERα and a transcription factor (E2F1or GATA3 or ERRα) in regulating target gene expression via four regulatory mechanisms. We identified gene sets in three signal transduction pathways perturbed in breast tumors: cell cycle, VEGF, and PDGFRB. Bivariate network analysis revealed several target genes previously implicated in tumor angiogenesis are among the predicted shared targets, including VEGFA, PDGFRB. In summary, our analysis suggests the importance for the multivariate space of an inferred ERα transcriptional regulatory network in breast cancer diagnostic and therapeutic development.

並列關鍵字

bivariate CID ； network ； transcription factor ； shared target gene expression ； angiogenesis