1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
Gene ontology to explore functions of DEGs detected in breast cancer cell response to soy isoflavones
Paper ID : 1147-ICB10
Authors:
Elham Ashrafi-Dehkordi *1, Ahmad Tahmasebi2, Habil Zare3, Mohammad Mazloomi1
1Nutrition Research Center, Department of Food Hygiene and Quality Control, School of Nutrition and Food Sciences, Shiraz University of Medical Sciences, Shiraz, 71348-14336, Iran
2Biotechnology Institute, College of Agriculture, Shiraz University, Shiraz, 71441-65186, Iran
3Department of Computer Science, Texas State University, San Marcos, Texas, 78666, USA 4 Department of Cell Systems & Anatomy, The University of Texas Health Science Center, San Antonio, Texas, 78229, USA
Abstract:
Disparities in breast cancer incidence between Asian and Western countries have long been noted [1]. A possible contributor to this difference may be the consumption of soy products because higher soy intake among Asian populations has been associated with a lower risk of breast cancer [2]. However, the effect of isoflavones on breast cancer risk is controversial. Many studies have reported that a diet high in isoflavones decreases the risk of breast cancer, while other studies (e.g. in vitro and animal studies) suggest that isoflavones are not statistically significantly associated with breast cancer risk [3]. The abundant available transcriptome data offer an excellent opportunity to investigate the mechanism-specific effects of isoflavones on cancer cells. A meta-analysis is a robust strategy that leverages multiple datasets and provides reliable results and information through larger sample sizes and thus more statistical power [4]. For the first time, we performed a large-scale meta-analysis using 283 microarray samples from 7 different experiments. In addition, we used GO and pathway enrichment analyses, which are differentially expressed genes (DEGs) in breast cancer cell response to isoflavones. The result of biological process enrichment analysis of the up-regulated genes revealed that the terms associated with cell division, mitotic nuclear division, and viral processes were significantly overrepresented. These findings also suggest that isoflavones may influence cell growth through modulating signaling pathways [5]. The terms telomere maintenance via recombination was also found to be significant. In addition, down-regulated genes revealed a number of terms related to protein transport and the negative regulation of cell proliferation. Moreover, the dominant categories of molecular functions were protein binding and ATP binding for the up-regulated genes. In the category of cellular components, the nucleus and cytoplasm were the most significantly represented groups for up-regulated and down-regulated genes, respectively.
Keywords:
Breast cancer, Isoflavones, Gene ontology, Meta-analysis
Status : Paper Accepted (Poster Presentation)