Evaluation Model for Breast Cancer Susceptibly Gene and its Implementation Using Cytoscape

Abstract

Based on the analysis of some literature, this paper proposes a multi-criteria evaluation model for breast cancer susceptibility gene and implements the evaluation using Cytoscape. Most of the data come from the online supplementary table of the literature, and a little missing is completed by the BiNGO plugin of Cytoscape. The Pub Med literature search shows CDC2 gene ranked first in our final evaluation list showed by Cytoscape has a close relation with breast cancer genes. Meanwhile TopBP1 gene ranked second and HMMR gene ranked sixth are proposed as breast cancer susceptibility genes by previous research. This shows our multi-criteria evaluation model can represent the complex relationship between genes and breast cancer susceptibly correctly. So other genes in the evaluation result should also be focused on. Besides, the practical application indicates that Cytoscape is a powerful biological analytical tool. Multi-criteria decision method is mainly used to resolve the problem with multi-criteria, the characteristic of which is the non-commensurable and incompatibility between objectives. The relationship between human genes is complicated, so some criteria are needed to find out those relationships and evaluate them. The previous research has given out the evaluation measure. Consequently multi-objective evaluation can be applied to analyze the relationship between researched gene and known breast cancer genes. Multi-criteria evaluation is a method to analyze the multi- criteria decision problem. The main procedures are: determine evaluation criterion, identify attribute, construct alternative set, estimate parameter, and evaluate by some calculation method.