1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
Microarray meta-analysis focused on transcription factors involve in breast cancer cell response to soy isoflavones
Paper ID : 1144-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:
Breast cancer is the most common cancer among women and one of the leading causes of cancer death worldwide [1]. Certain lifestyle behaviors and diet patterns are recognized as factors that influence the risk of breast cancer [2]. Intake of phytoestrogens can affect the risk of breast cancer. For the first time, we performed large-scale comparative transcriptomic analysis via a meta-analysis of breast cancer cell response to soy isoflavones using microarray gene expression data implemented. By analyzing 283 microarray samples from 7 different experiments, we identified 3,890 genes differentially regulated in response to breast cancer cell response to soy isoflavones, with a false discovery rate (FDR) ≤ 0.001, of which 2,173 were up-regulated and 1,717 were down-regulated. Among the DEGs, 269 TF genes were identified, and these belong to 42 TF families. The C2H2 ZF, bZIP, and bHLH were the largest families with 85, 25, and 19 members, respectively. Recent studies show that zinc finger proteins are key TFs that contribute to cancer progression by regulating the transcription of downstream genes involved in proliferation, apoptosis, migration, and invasion [3]. For example, ZNF217 has been reported to play a critical role in promoting breast cancer metastasis [4]. In total, 55.4% of the TFs were up-regulated and 44.6% were down-regulated. Interestingly, the expression level of all TFs in the E2F family (including E2F1-6, and E2F8) were up-regulated in the isoflavones exposure condition. pRb–E2F complexes coordinate the expression of genes involved in the cell cycle and apoptosis [5]. Previous studies have indicated that pRb binds to E2F1, E2F2, and E2F3 during much of the G1 phase of the cell cycle, and it silences gene expression by recruiting HDACs or HMTs. The tumor suppressor pRb exerts its effect on cell growth through interaction with other factors, such as activating E2F1-3 [6, 7].
Keywords:
Isoflavones, Breast cancer, Transcriptome data, Meta-analysis
Status : Paper Accepted (Poster Presentation)