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master's thesis
Parametrizirani odabir srodnih proteinskih sljedova u svrhu procjene starosti gena
Zagreb: University of Zagreb, Faculty of Electrical Engineering and Computing, 2023. urn:nbn:hr:168:451749
Ribarić, Antea
University of Zagreb
Faculty of Electrical Engineering and Computing

Institutional repository: FER Repository

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Ribarić, A. (2023). Parametrizirani odabir srodnih proteinskih sljedova u svrhu procjene starosti gena (Master's thesis). Zagreb: University of Zagreb, Faculty of Electrical Engineering and Computing. Retrieved from https://urn.nsk.hr/urn:nbn:hr:168:451749

Ribarić, Antea. "Parametrizirani odabir srodnih proteinskih sljedova u svrhu procjene starosti gena." Master's thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, 2023. https://urn.nsk.hr/urn:nbn:hr:168:451749

Ribarić, Antea. "Parametrizirani odabir srodnih proteinskih sljedova u svrhu procjene starosti gena." Master's thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, 2023. https://urn.nsk.hr/urn:nbn:hr:168:451749

Ribarić, A. (2023). 'Parametrizirani odabir srodnih proteinskih sljedova u svrhu procjene starosti gena', Master's thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, accessed 29 August 2024, https://urn.nsk.hr/urn:nbn:hr:168:451749

Ribarić A. Parametrizirani odabir srodnih proteinskih sljedova u svrhu procjene starosti gena [Master's thesis]. Zagreb: University of Zagreb, Faculty of Electrical Engineering and Computing; 2023 [cited 2024 August 29] Available at: https://urn.nsk.hr/urn:nbn:hr:168:451749

A. Ribarić, "Parametrizirani odabir srodnih proteinskih sljedova u svrhu procjene starosti gena", Master's thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, Zagreb, 2023. Available at: https://urn.nsk.hr/urn:nbn:hr:168:451749

Metadata
TitleParametrizirani odabir srodnih proteinskih sljedova u svrhu procjene starosti gena
Title (english)Parametrized selection of related protein sequences required for the estimation of gene age
AuthorAntea Ribarić
MentorMirjana Domazet-Lošo (mentor)
Committee memberMirjana Domazet-Lošo (predsjednik povjerenstva)
Committee memberTomislav Jagušt (član povjerenstva)
Committee memberDanijel Mlinarić (član povjerenstva)
GranterUniversity of Zagreb
Faculty of Electrical Engineering and Computing
Zagreb
Defense date and country2023-07-03, Croatia
Abstract
U ovom radu je provedena filostratigrafska analiza kako bi se odredila starost gena Homo sapiensa u usporedbi s drugim eukariotskim organizmima. Kao temelj filostratigrafije korišteni su bioinformatički alati MMseqs2 i BLAST za pretragu sličnosti gena. Analizirano je kretanje starosti gena s obzirom na graničnu E-vrijednost te je dodan novi uvjet za određivanje statističkog značaja pogodaka, dinamički prag lažne homologije. Sklonost lažnoj homologiji je procijenjena pretragom sličnosti nad reverznom ciljnom bazom. Rezultati su pokazali da je alat BLAST skloniji lažnoj homologiji u usporedbi s alatom MMseqs2, a određene starosti gena su se pokazale kao robusne i nisu značajno ovisile o odabiru granične E-vrijednosti.
Abstract (english)
In this paper, a phylostratigraphic analysis was implemented to determine the age of Homo sapiens genes in comparison with other eukaryotic organisms. Bioinformatics tools MMseqs2 and BLAST were used as the basis of phylostratigraphy to search for gene similarity. The age distribution of genes was analysed with regard to the E-value threshold, and a new criterion was added for determining the statistical significance of hits, the dynamic threshold of false homology. The propensity for false homology was assessed by a similarity search over the reverse target base. The results showed that BLAST is more prone to false homology compared to the MMseqs2, and estimated gene ages were shown to be robust and not significantly dependent on the choice of E-value cut-off.
Keywords
Keywords (english)
Languagecroatian
URN:NBNurn:nbn:hr:168:451749
Study programmeTitle: Computing
Study programme type: university
Study level: graduate
Academic / professional title: magistar/magistra inženjer/inženjerka računarstva (magistar/magistra inženjer/inženjerka računarstva)
Type of resourceText
File originBorn digital
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Created on2023-10-11 10:20:38