Thesis Details

Webová aplikácia pre výber sekvenačných primerov pre amplikónové sekvenovanie 16S rRNA

Master's Thesis Student: Jurča Jan Academic Year: 2021/2022 Supervisor: Smatana Stanislav, Ing.
English title
Web Application for Primer Selection for 16S rRNA Amplicon Sequencing
Language
Czech
Abstract

Main goal of this thesis was an implementation of web application, that can evalutate and recommend primer pairs for 16S rRNA amplicon sequencing, according to users specific needs and by this simplify the procces of primer pair selection. Primer pair evaluation is based on database of primer pairs, which contains data about senzitivity and specifity of each primer pair. Part of the work was also the performance optimization of the primer pair analysis algorithm, that computes senzitivity and specifity data. This optimization helped in an integration of algorithm into the application, which means that users can submit their own primer pair sequences, run analysis and get informations about position of amplified region, sensitivity and specifity.

Keywords

metagenomic, 16S rRNA, amplicon sequencing, PCR, primer, web application

Department
Degree Programme
Files
Status
defended, grade A
Date
21 June 2022
Reviewer
Committee
Sekanina Lukáš, prof. Ing., Ph.D. (DCSY FIT BUT), předseda
Bidlo Michal, Ing., Ph.D. (DCSY FIT BUT), člen
Burgetová Ivana, Ing., Ph.D. (DIFS FIT BUT), člen
Lengál Ondřej, Ing., Ph.D. (DITS FIT BUT), člen
Matoušek Radomil, doc. Ing., Ph.D. (IACS FME BUT), člen
Vašíček Zdeněk, doc. Ing., Ph.D. (DCSY FIT BUT), člen
Citation
JURČA, Jan. Webová aplikácia pre výber sekvenačných primerov pre amplikónové sekvenovanie 16S rRNA. Brno, 2022. Master's Thesis. Brno University of Technology, Faculty of Information Technology. 2022-06-21. Supervised by Smatana Stanislav. Available from: https://www.fit.vut.cz/study/thesis/25131/
BibTeX
@mastersthesis{FITMT25131,
    author = "Jan Jur\v{c}a",
    type = "Master's thesis",
    title = "Webov\'{a} aplik\'{a}cia pre v\'{y}ber sekvena\v{c}n\'{y}ch primerov pre amplik\'{o}nov\'{e} sekvenovanie 16S rRNA",
    school = "Brno University of Technology, Faculty of Information Technology",
    year = 2022,
    location = "Brno, CZ",
    language = "czech",
    url = "https://www.fit.vut.cz/study/thesis/25131/"
}
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