circGPAcorr: an integrative tool for functional annotation of circular RNAs using expression data

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F68407700%3A21230%2F25%3A00384573" target="_blank" >RIV/68407700:21230/25:00384573 - isvavai.cz</a>
Alternative codes found
RIV/00023736:_____/25:00013808
Result on the web
<a href="https://doi.org/10.1186/s13040-025-00468-3" target="_blank" >https://doi.org/10.1186/s13040-025-00468-3</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1186/s13040-025-00468-3" target="_blank" >10.1186/s13040-025-00468-3</a>

Result language
angličtina
Original language name
circGPAcorr: an integrative tool for functional annotation of circular RNAs using expression data
Original language description
Circular RNAs play a crucial role in cell development and serve as biomarkers in many diseases. Nevertheless, the function of many circular RNAs remains unknown. This function can be inferred from sponging and silencing interactions with micro RNAs and messenger RNAs. We recently proposed a network-based circRNA functional annotation tool, circGPA. However, validation data for RNA interactions are often sparse and predicted interactions contain many false positives. To address this issue, we propose an extended algorithm named circGPAcorr, which uses expression data to weight the interactions, resulting in more precise functional annotation. To assess the significance of the results, the p-value is calculated using reduction to circGPA, a generating-polynomial-based method. We show that the problem is #P-hard, and thus computationally difficult. The circGPAcorr algorithm is tested on publicly available myelodysplastic syndromes expression data, providing gene ontology annotations that align with the literature on myelodysplastic syndromes. At the same time, we demonstrate its performance in the circRNA-disease annotation task.
Czech name
—
Czech description
—

Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
—
OECD FORD branch
10201 - Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)

Project
<a href="/en/project/NU20-03-00412" target="_blank" >NU20-03-00412: Role of transposable elements and PIWI-interacting RNAs in myelodysplastic syndrome and their potential clinical applications</a><br>
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year
2025
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Similar results(10)