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Prediction of the Secondary Structure of Proteins by Cellular Automaton
Šalanda, Vojtěch ; Vogel, Ivan (referee) ; Bendl, Jaroslav (advisor)
This thesis presents a new approach to the prediction of the secondary structure of proteins. It employs a new method based on cellular automata and its characteristic properties. The main objective is to increase speed of the prediction even at the cost of slight decrease of overall accuracy. Optimal parameters of cellular automata was found by genetic algorithm using suitable genetic operators. These parameters are incorporated into developed application for prediction. Finally, the results was compared with results of other tools for this purpose.
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Prediction of RNA secondary structure
Klímová, Markéta ; Provazník, Ivo (referee) ; Maděránková, Denisa (advisor)
RNA secondary structure is very important in many biological processes. Efficient structure prediction can give information for experimental investigations of these processes. Many available programs for secondary structure prediction exist. Some of them use single sequence, the others use more related sequences. Pseudoknots are still problematic for most methods. This work presents several methods and publicly available software and the implementation of minimum free energy method is described.
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Prediction of the Secondary Structure of Proteins by Cellular Automaton
Šalanda, Vojtěch ; Vogel, Ivan (referee) ; Bendl, Jaroslav (advisor)
This thesis presents a new approach to the prediction of the secondary structure of proteins. It employs a new method based on cellular automata and its characteristic properties. The main objective is to increase speed of the prediction even at the cost of slight decrease of overall accuracy. Optimal parameters of cellular automata was found by genetic algorithm using suitable genetic operators. These parameters are incorporated into developed application for prediction. Finally, the results was compared with results of other tools for this purpose.
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Prediction of RNA secondary structure
Klímová, Markéta ; Provazník, Ivo (referee) ; Maděránková, Denisa (advisor)
RNA secondary structure is very important in many biological processes. Efficient structure prediction can give information for experimental investigations of these processes. Many available programs for secondary structure prediction exist. Some of them use single sequence, the others use more related sequences. Pseudoknots are still problematic for most methods. This work presents several methods and publicly available software and the implementation of minimum free energy method is described.
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