m / 中国生物化学与分子生物学报

N6, 2′ -O-dimethyladenosine (m

iSucc-PseAAC:Prediction of Lysine Succinylation Modification Sites Based on Ensemble Machine Learning / 中国生物化学与分子生物学报

Lysine succinylation is a novel post-translational modification, which plays an important role in regulating distinct cellular functions control, therefore it is necessary to accurately identify succinylation sites in proteins. As traditional experiments consume material and financial resources, prediction by calculation is an efficient method being proposed recently. In this study, we developed a new prediction method iSucc-PseAAC, which uses a variety of classification algorithms combined with different feature extraction methods. Moreover, it is found that under the feature extraction based on coupled sequence (PseAAC), the classification effect of support vector machine is the best, and it could be combined with ensemble learning to solve the problem of data imbalance. Compared with the existing methods, iSucc-PseAAC has more significance and practicality in predicting lysine succinylation sites.

iSulf_wide-PseAAC: A Protein S-sulfonylation Prediction Method Based on Ensemble Support Vector Machine Approach / 中国生物化学与分子生物学报

Protein S-sulfonylation is a reversible protein post-translational modification (PTM) that plays a vital role in biological growth. It is also related to some diseases. Therefore from the perspective of basic research or drug development, we are faced with a challenging question: where are the S-sulfonylation sites on proteins? In order to solve this problem, we developed a method for site prediction. The working principle of the system is (1) Combine these proteins into isometric amino acids.(2) Use down sampling to balance the training data set;(3) Build a comprehensive prediction system through ensemble support vector machines. In the end, the accuracy rate on the independent tester reached 90. 77%. Compared with the existing methods, all other indicators have been improved, and the improvement effect is obvious. Thus we provided help for the development of bioinformatics. We have established a friendly web server prediction website: http://www.jci-bioinfo.cn/iSulf_Wide-PseAAC, through which the website can make the prediction online, without complicated calculation formulas. At the same time, the mathematical methods used in this article can solve many problems in similar related fields.