Rok Razpotnik (Author), Petra Nassib (Author), Tanja Kunej (Author), Damjana Rozman (Author), Tadeja Režen (Author)

Abstract

Circular RNAs (circRNAs) are increasingly recognized as having a role in cancer development. Their expression is modified in numerous cancers, including hepatocellular carcinoma (HCC); however, little is known about the mechanisms of their regulation. The aim of this study was to identify regulators of circRNAome expression in HCC. Using publicly available datasets, we identified RNA binding proteins (RBPs) with enriched motifs around the splice sites of differentially expressed circRNAs in HCC. We confirmed the binding of some of the candidate RBPs using ChIP-seq and eCLIP datasets in the ENCODE database. Several of the identified RBPs were found to be differentially expressed in HCC and/or correlated with the overall survival of HCC patients. According to our bioinformatics analyses and published evidence, we propose that NONO, PCPB2, PCPB1, ESRP2, and HNRNPK are candidate regulators of circRNA expression in HCC. We confirmed that the knocking down the epithelial splicing regulatory protein 2 (ESRP2), known to be involved in the maintenance of the adult liver phenotype, significantly changed the expression of candidate circRNAs in a model HCC cell line. By understanding the systemic changes in transcriptome splicing, we can identify new proteins involved in the molecular pathways leading to HCC development and progression.

Keywords

hepatocelularni karcinom;krožna RNA;identifikacija novih proteinov;hepatocellular carcinoma;circular RNA;identification of novel proteins;

Data

Language: English
Year of publishing:
Typology: 1.01 - Original Scientific Article
Organization: UL MF - Faculty of Medicine
UDC: 616-006
COBISS: 70157827 Link will open in a new window
ISSN: 1422-0067
Views: 118
Downloads: 49
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Other data

Secondary language: Slovenian
Secondary keywords: hepatocelularni karcinom;krožna RNA;identifikacija novih proteinov;
Type (COBISS): Article
Pages: str. 1-14
Volume: ǂVol. ǂ22
Issue: ǂiss. ǂ14
Chronology: 2021
DOI: 10.3390/ijms22147477
ID: 14808624