CircPlant: An Integrated Tool for circRNA Detection and Functional Prediction in Plants / 基因组蛋白质组与生物信息学报·英文版
Genomics, Proteomics & Bioinformatics
;
(4): 352-358, 2020.
Artículo
en Inglés
| WPRIM
| ID: wpr-880487
ABSTRACT
The recent discovery of circular RNAs (circRNAs) and characterization of their functional roles have opened a new avenue for understanding the biology of genomes. circRNAs have been implicated to play important roles in a variety of biological processes, but their precise functions remain largely elusive. Currently, a few approaches are available for novel circRNA prediction, but almost all these methods are intended for animal genomes. Considering that the major differences between the organization of plant and mammal genomes cannot be neglected, a plant-specific method is needed to enhance the validity of plant circRNA identification. In this study, we present CircPlant, an integrated tool for the exploration of plant circRNAs, potentially acting as competing endogenous RNAs (ceRNAs), and their potential functions. With the incorporation of several unique plant-specific criteria, CircPlant can accurately detect plant circRNAs from high-throughput RNA-seq data. Based on comparison tests on simulated and real RNA-seq datasets from Arabidopsis thaliana and Oryza sativa, we show that CircPlant outperforms all evaluated competing tools in both accuracy and efficiency. CircPlant is freely available at http//bis.zju.edu.cn/circplant.
Texto completo:
Disponible
Índice:
WPRIM (Pacífico Occidental)
Asunto principal:
Oryza
/
Análisis de Secuencia de ARN
/
Arabidopsis
/
ARN de Planta
/
ARN Circular
Tipo de estudio:
Estudio diagnóstico
/
Estudio pronóstico
Idioma:
Inglés
Revista:
Genomics, Proteomics & Bioinformatics
Año:
2020
Tipo del documento:
Artículo
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