Vizualizacija "Runs of Homozygosity" DNA segmenata

master's thesis

• Title (english): Visualization of "Runs of Homozygosity" segment
• Author: Marko Hrženjak
• Mentor: Maja Ferenčaković (mentor)
• Committee member: Maja Ferenčaković (predsjednik povjerenstva)
• Committee member: Ino Čurik (član povjerenstva)
• Committee member: Vlatka Čubrić Čurik (član povjerenstva)
• Granter: University of Zagreb; Faculty of Agriculture; (Animal Science); Zagreb
• Defense date and country: 2018-09-21, Croatia
• Scientific / art field, discipline and subdiscipline: BIOTECHNICAL SCIENCES; Agronomy

Abstract

„Runs of homozygosity” su segmenti/cijele genomske regije gdje se identični haplotipovi nasljeđuju od svakoga roditelja. Od njihovog otkrića zbog tehnološkog napretka u 90-ima, „Runs of homozygosity” su otkrili podosta o podrijetlu genoma jedinke, dešifrirajući genetsku bazu monogenskih i kompleksnih svojstava i bolesti. Kako tehnologija napreduje tako se i povećava zahtjev za novim metodama analize SNP podataka. Mapiranje ROH se može provesti kroz više načina i svaki ima svoje prednosti i mane. U ovom radu će se predstaviti metoda analiziranja, čišćenja i vizualni prikaz kao krajnji rezultat u Pythonu.

Abstract (english)

"Runs of homozygosity" are segments or whole genomic regions where the identical haplotypes are inherited from each parent. Since their discovery because of the technological advances in late 90s, "Runs of homozygosity" shed some light on about individual genome origin, decoding the genetic base of monogenic and complex traits and diseases. As technology progresses, a demand for new methods of analysis of SNP data rise as well. Mapping of ROH segments can be performed in many was and every method has its own strengths and flaws. In this paper a method will be shown for analysis, data cleaning, and visual representation as a result in Python.

• Keywords: „Runs of Homozygosity“; Python; detekcija ROH; vizualizacija
• Keywords (english): Runs of homozygosity; Python; detection of ROH; vizualisation
• Language: croatian
• URN:NBN: urn:nbn:hr:204:059070
• Study programme: Title: Animal Genetics and Breeding; Study programme type: university; Study level: graduate; Academic / professional title: magistar/ magistra inženjer/inženjerka genetike i oplemenjivanja životinja (magistar/ magistra inženjer/inženjerka genetike i oplemenjivanja životinja)
• Type of resource: Text
• File origin: Born digital
• Access conditions: Open access
• Created on: 2018-10-15 07:38:16