基于序列特征的疾病基因预测-生物信息技术专业论文.docxVIP

II II Abstract Positional candidate strategy has become the main approach to identify disease-causative genes. How to evaluate the risk of being a disease gene for the hundreds of candidate genes located in the chromosome region, which is located by such approach as linkage analysis, is one of the key problems of positional candidate strategy. Effective solution of the problem will remarkably shorten the time and decrease the cost of disease gene identification. As more and more disease genes being identified, it is possible for computational method to predict disease genes by using the knowledge learned from known disease genes. The three approaches of this kind reported recently, the approaches respectively based on gene expression profile, gene function and gene sequence characteristics, can’t solve the problem perfectly, because the approaches based on expression profile and GO annotation heavily depend on the integrality and veracity of the available information, while the approaches based on gene sequence features discriminate disease genes from normal genes merely by using the statistic difference of sequence characteristics between all the known disease genes and normal human genes, treating all the diseases equally. To tackle these problems, exploring more disease-specific characteristics of disease genes in sequence level is possibly a new way. Amino acid usage is selected to perform the characteristic mining as it is known to be related to lots of aspects such as gene expression profile, subcellular location and gene function. The research is developed to predict the disease gene based on their protein sequence features and the support vector machine (SVM) method. The features used in my research include the amino acids composition, hydrophobicity, normalized van der Waals volume, polarity, polarizability and charge. Several measures, including principal component analysis used in data compression and postprocessing strategies to evaluate the posterior pr