Abstract
The rapidly increasing number of sequence entering into the genome databank has created the need for fully automated methods to analyze them. Knowing the cellular location of a protein is a key step towards understanding its function. The development in statistical prediction of protein attributes generally consists of two cores: one is to construct a training dataset and the other is to formulate a predictive algorithm. The latter can be further separated into two subcores: one is how to give a mathematical expression to effectively represent a protein and the other is how to find a powerful algorithm to accurately perform the prediction. Here, an improved evolutionary conservation algorithm was proposed to calculate per residue conservation score. Then, each protein can be represented as a feature vector created with multi-scale energy (MSE). In addition, the protein can be represented as other feature vectors based on amino acid composition (AAC), weighted auto-correlation function and Moment descriptor methods. Finally, a novel hybrid approach was developed by fusing the four kinds of feature classifiers through a product rule system to predict 12 subcellular locations. Compared with existing methods, this new approach provides better predictive performance. High success accuracies were obtained in both jackknife cross-validation test and independent dataset test, suggesting that introducing protein evolutionary information and the concept of fusing multi-features classifiers are quite promising, and might also hold a great potential as a useful vehicle for the other areas of molecular biology.
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Zhang, S., Zhang, Y., Li, J., Yang, H., Cheng, Y., Zhou, G. (2007). A New Hybrid Approach to Predict Subcellular Localization by Incorporating Protein Evolutionary Conservation Information. In: Li, K., Li, X., Irwin, G.W., He, G. (eds) Life System Modeling and Simulation. LSMS 2007. Lecture Notes in Computer Science(), vol 4689. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-540-74771-0_20
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DOI: https://doi.org/10.1007/978-3-540-74771-0_20
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