I am a second year PhD student at University of Abertay Dundee, Scotland. I finished both my undergraduate and masters degrees in Computer Science from Computer Science Department, Faculty of Computer and Information Sciences, Ain Shams University, Cairo, Egypt.
The thesis presents a study on five different approaches used for predicting the protein secondary structure given only the primary amino acid sequence. These approaches are: Case Based Reasoning, Artificial Neural Networks, Decision Tables, Decision Trees and Bayes Networks. Two different datasets are used with different sequence lengths and with proper distribution among different amino acids. In Case Based Reasoning, 8 different experiments are conducted resulting in prediction accuracy of 88%.In ANN, 1024 experiments are conducted using different computation parameters resulting in accuracy of 68%, 81% and 86% for predicting alpha, beta and alpha and beta together respectively.Then for the statistical techniques, ZeroR is used to determine the baseline accuracy for the other three. Eight experiments are conducted for each of the Decision Tree, Decision Table and Bayes Network. The accuracies reach 70%, 71% and 75% respectively. The discussed experiments reached a prediction accuracy of 88% for maximum and 75% on average. MATLAB, WEKA and myCBR are used in implantation.
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