Thesis Details

Multi-Agent System for the Prediction of the Effect of Mutations on Protein Stability

Master's Thesis Student: Doseděl Ondřej Academic Year: 2021/2022 Supervisor: Musil Miloš, Ing., Ph.D.
Czech title
Multi-agentní systém pro predikci vlivu mutací na stabilitu proteinů
Language
English
Abstract

Proteins are building blocks of every living organism, as they are responsible for multiple crucial functions. They consist of amino acids chains and these chains can be changed. The change is called mutation. Mutation can happen naturally, or created in laboratory.  The~aim of this thesis is to present novel methology for determining protein's stability upon mutations. It consists of two models. The first model is multi-agent system which handles classification into two classes, i.e, stabilizing and destabilizing. The best model gained 0.7~ACC and 0.41 MCC. The second part dealt with predicting exact values of G where an Extreme Gradient Boosting model was created which managed to gain 1.67 RMSE with 0.53 PCC. New datasets for training and validation, which are truly independent, were also introduced in this thesis.

Keywords

protein, machine learning, protein stability, classification, regression, mutations, Extreme Gradient Boosting

Department
Degree Programme
Files
Status
defended, grade B
Date
21 June 2022
Reviewer
Committee
Kolář Dušan, doc. Dr. Ing. (DIFS FIT BUT), předseda
Bartík Vladimír, Ing., Ph.D. (DIFS FIT BUT), člen
Hruška Tomáš, prof. Ing., CSc. (DIFS FIT BUT), člen
Hynek Jiří, Ing., Ph.D. (DIFS FIT BUT), člen
Veselý Vladimír, Ing., Ph.D. (DIFS FIT BUT), člen
Vojnar Tomáš, prof. Ing., Ph.D. (DITS FIT BUT), člen
Citation
DOSEDĚL, Ondřej. Multi-Agent System for the Prediction of the Effect of Mutations on Protein Stability. Brno, 2022. Master's Thesis. Brno University of Technology, Faculty of Information Technology. 2022-06-21. Supervised by Musil Miloš. Available from: https://www.fit.vut.cz/study/thesis/24374/
BibTeX
@mastersthesis{FITMT24374,
    author = "Ond\v{r}ej Dosed\v{e}l",
    type = "Master's thesis",
    title = "Multi-Agent System for the Prediction of the Effect of Mutations on Protein Stability",
    school = "Brno University of Technology, Faculty of Information Technology",
    year = 2022,
    location = "Brno, CZ",
    language = "english",
    url = "https://www.fit.vut.cz/study/thesis/24374/"
}
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