prikaz prve stranice dokumenta Protočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora
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undergraduate thesis
Protočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora
Zagreb: University of Zagreb, Faculty of Electrical Engineering and Computing, 2020. urn:nbn:hr:168:617498
Martinović, Ivona
University of Zagreb
Faculty of Electrical Engineering and Computing

Institutional repository: FER Repository

Cite this document

Martinović, I. (2020). Protočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora (Undergraduate thesis). Zagreb: University of Zagreb, Faculty of Electrical Engineering and Computing. Retrieved from https://urn.nsk.hr/urn:nbn:hr:168:617498

Martinović, Ivona. "Protočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora." Undergraduate thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, 2020. https://urn.nsk.hr/urn:nbn:hr:168:617498

Martinović, Ivona. "Protočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora." Undergraduate thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, 2020. https://urn.nsk.hr/urn:nbn:hr:168:617498

Martinović, I. (2020). 'Protočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora', Undergraduate thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, accessed 05 October 2024, https://urn.nsk.hr/urn:nbn:hr:168:617498

Martinović I. Protočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora [Undergraduate thesis]. Zagreb: University of Zagreb, Faculty of Electrical Engineering and Computing; 2020 [cited 2024 October 05] Available at: https://urn.nsk.hr/urn:nbn:hr:168:617498

I. Martinović, "Protočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora", Undergraduate thesis, University of Zagreb, Faculty of Electrical Engineering and Computing, Zagreb, 2020. Available at: https://urn.nsk.hr/urn:nbn:hr:168:617498

Metadata
TitleProtočna struktura za detekciju grupa modificiranih nukleotida u očitanjima RNA dobivenih metodom nanopora
Title (english)Pipeline for Detection Clusters of Modified Nucleotides in Nanopore Sequenced RNA Reads
AuthorIvona Martinović
MentorMile Šikić (mentor)
Committee memberMile Šikić (predsjednik povjerenstva)
Committee memberKrešimir Križanović (član povjerenstva)
Committee memberJosip Marić (član povjerenstva)
GranterUniversity of Zagreb
Faculty of Electrical Engineering and Computing
Zagreb
Defense date and country2020-07-06, Croatia
Scientific / art field,
discipline and subdiscipline		TECHNICAL SCIENCES
Computing
Abstract
Glavna zadaća ovog rada je detekcija grupa modificiranih nukletida u očitanjima RNA dobivenih metodom nanopora. Podaci za ovaj rad su očitanja i referenca ribozima tetrahimena, skupine I introna iz Tetrahymena. Cilj je bio integirati postojeće alate kao što su Graphmap, Minimap i Minimap2, Ram, i Racon te ih povezati python skriptama u protočnu strukturu. Kako bi se to napravilo, svi alati za poravnavanje bili su testirani. Drugačiji pristup je takod̄er proban, poravnavanje očitanja u domeni signala. Protočna struktura sastoji se od tri dijela: odabira očitanja, poliranja i detekcije grupa modificiranih nukleotida. Izvorni kod dostupan je na: https: //github.com/lbcb-edu/BSc-thesis-19-20/tree/imartinovic.
Abstract (english)
The main concern of this thesis is the clustering of modified nucleotides in nanopore sequenced RNA reads. The data for this thesis are reads and the reference from the tetrahymena ribozyme, a group I intron from Tetrahymena. The goal was to integrate existing tools such as Graphmap, Minimap and Minimap2, Ram, and Racon and link them with python scripts into a pipeline. To do this, all of the alignment tools were tested. A different approach for alignment was also tried out, aligning the reads in the signal domain. The pipeline was implemented in three parts: read selection, polishing and clustering of modified nucleotides. Source code is available at: https: //github.com/lbcb-edu/BSc-thesis-19-20/tree/imartinovic.
Keywords
Keywords (english)
Languageenglish
URN:NBNurn:nbn:hr:168:617498
Study programmeTitle: Computing
Study programme type: university
Study level: undergraduate
Academic / professional title: sveučilišni/a prvostupnik/ prvostupnica (baccalaureus/baccalaurea) inženjer/inženjerka računarstva (sveučilišni/a prvostupnik/ prvostupnica (baccalaureus/baccalaurea) inženjer/inženjerka računarstva)
Type of resourceText
File originBorn digital
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Created on2023-01-14 09:28:38