diplomsko delo
Oskar Nemec (Author), Tadeja Režen (Mentor)

Abstract

Krožne RNA uravnavajo številne procese v celicah in mnoge med njimi imajo vlogo v patofizioloških procesih, kot je razvoj raka. Imajo zelo raznolike funkcije od vezave miRNA in proteinov ter uravnavanja njihove vloge do prepisa v proteine. Pri raku imajo krožne RNA spremenjeno izražanje in delujejo kot onkogeni ali tumorski supresorji. Diplomsko delo se osredotoča na vlogo krožnih RNA v primarnem raku jeter, čigar najpogostejša vrsta je hepatocelularni karcinom (HCC). Zaradi omejenih simptomov in pomanjkanja učinkovitih bioloških označevalcev za zgodnjo diagnozo gre za enega od vodilnih vzrokov smrti zaradi raka na svetu. Namen diplomske naloge je bil uporaba različnih bioinformatskih orodij in podatkovnih zbirk za napoved funkcije krožnih RNA, ki imajo spremenjeno izražanje v tumorjih raka jeter, in eksperimentalna validacija njihovega izražanja v modelnih celičnih linijah raka jeter. Po funkcijski anotaciji smo kot kandidate izbrali eksosomske krožne RNA in s pomočjo metode RT-qPCR uspešno potrdili njihovo izražanje v modelnih celičnih linijah raka jeter (HepG2, Huh-7, SNU-449) in liniji jetrnih pericitov (LX-2). Izražanje smo izrazili relativno na kontrolno linijo THLE-5b in ugotovili, da se določene krožne RNA v uporabljenih celičnih linijah čezmerno izražajo, druge pa znižano. Ugotovili smo, da se podatki v večini uporabljenih podatkovnih zbirk ne prekrivajo, saj gre večinoma za eksperimentalno nepotrjene de novo napovedih z različnimi algoritmi in ne za eksperimentalno pridobljene podatke, ter da je nivo izražanja krožnih RNA v različnih linijah raka jeter različen.

Keywords

rak jeter;hepatocelularni karcinom;krožne RNA;circRNA;RT-qPCR;funkcijska anotacija;diplomska dela;

Data

Language: Slovenian
Year of publishing:
Typology: 2.11 - Undergraduate Thesis
Organization: UL FKKT - Faculty of Chemistry and Chemical Technology
Publisher: [O. Nemec]
UDC: 577.21:616.36-006(043.2)
COBISS: 96411907 Link will open in a new window
Views: 210
Downloads: 44
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Other data

Secondary language: English
Secondary title: Functional annotation of differentially expressed circRNA in liver cancer
Secondary abstract: Circular RNAs regulate many processes in cells and many of them play a role in pathophysiological processes such as cancer development. They have very diverse functions from binding miRNA and proteins and regulating their role to transcription into proteins. In cancer, circular RNAs have altered expression and act as oncogenes or tumor suppressors. The thesis focuses on the role of circular RNAs in primary liver cancer, the most common type of which is hepatocellular carcinoma (HCC). Due to its limited symptoms and lack of effective biomarkers for early diagnosis, it is one of the leading causes of cancer death in the world. The purpose of the thesis was to use various bioinformatics tools and databases to predict the functions of circular RNAs that have altered expression in liver cancer tumors and the experimental validation of their expression in model cell lines for liver cancer. Following functional annotation, exosomal circular RNAs were selected as candidates and their expression in model liver cancer cell lines (HepG2, Huh-7, SNU-449) and a liver pericyte line (LX-2) was successfully confirmed using the RT-qPCR method. Expression was expressed relative to the THLE-5b control line, and it was found that certain circular RNAs in the cell lines used were upregulated and others downregulated. We found that the data in most of the databases used did not overlap, as they are mostly experimentally unconfirmed de novo predictions with different algorithms rather than experimentally obtained data, and that the levels of circular RNA expression in different liver cancer lines is variable.
Secondary keywords: circular RNA;hepatocellular carcinoma;RT-qPCR;functional annotation;
Type (COBISS): Bachelor thesis/paper
Study programme: 1000371
Thesis comment: Univ. v Ljubljani, Fak. za kemijo in kemijsko tehnologijo, UNI Biokemija
Pages: 73 str.
ID: 14435909