Epigenetics studies heritable changes in gene expression that are happening without alterations in the underlying DNA sequence. Up to date, there are three known epigenetic mechanisms: DNA methylation, histone modification and synthesis of small non-coding RNA. Wnt signaling pathway comprises from heterodimer receptor composed of transmembrane proteins onto which positive and negative regulators of cellular growth bind. Binding of positive regulators leads to translocation of β-catenin into the nucleus and activation of β-catenin family- depended transcriptional factors, while binding of negative regulators inhibits this process. One of the negative regulators of Wnt signaling pathway is a protein gene product DACT 2. It acts as a tumor suppressor, hence its expression in colorectal cancer and gastric cancer is diminished. This review demonstrates the systemic look on epigenetic changes among the main effectors of the Wnt signaling pathway and their influence on the tumor development, emphasizing the tumors of reproductive system. Drugs applied in the therapy of the aforementioned tumors are of special importance. Their therapeutic effect is accomplished by the influence on epigenetic changes of genes that code for the main proteins of Wnt signaling pathway. Isoflavones that belong to the class of plant derived compounds with estrogenic activity are found in the pulses, chickpeas, and soy products. Beside their action on the signalization via estrogenic receptors they can also modify epigenome of the breast, uterus, endometrium, prostate and various other organs.