Thesis Details
Vyhledávání enzymů v metagenomických datech
This thesis presents specification and implementation of a system for detection of enzymesin metagenomic data. The detection is based on a provided enzyme sequence and its goalis to search the metagenomic sample for its novel variants. In order to guarantee thatfound enzymes truly have the desired catalytic function, the system employs a number ofcatalytic function verification methods. Their specification, implementation and evaluationis one of the main contributions of this thesis. Experiments have shown, that proposedmethods reach sensitivity as high as 89%, specificity of 95%, values of AUC metric above0.9 and average throughput of 1,203 verifications per second on regular personal computer.Evaluation of the system also led to discovery of a partial sequence of novel haloalkanedehalogenase enzyme in a metagenomic sample from soil. The implementation is able towork on a personal computer as well as on a grid computing environment.
metagenomics, enzymes, enzyme detection, catalytic function verification, catalytic site,novel enzymes, catalytic function, haloalkane dehalogenase, active site, catalytic residues
Burgetová Ivana, Ing., Ph.D. (DIFS FIT BUT), člen
Horák Aleš, doc. RNDr., Ph.D. (FI MUNI), člen
Martínek Tomáš, doc. Ing., Ph.D. (DCSY FIT BUT), člen
Rogalewicz Adam, doc. Mgr., Ph.D. (DITS FIT BUT), člen
Zbořil František, doc. Ing., Ph.D. (DITS FIT BUT), člen
@mastersthesis{FITMT19850, author = "Stanislav Smatana", type = "Master's thesis", title = "Vyhled\'{a}v\'{a}n\'{i} enzym\r{u} v metagenomick\'{y}ch datech", school = "Brno University of Technology, Faculty of Information Technology", year = 2017, location = "Brno, CZ", language = "czech", url = "https://www.fit.vut.cz/study/thesis/19850/" }