miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data.
RNA Biol
; 18(12): 2308-2320, 2021 12.
Article
em En
| MEDLINE
| ID: mdl-33822666
ABSTRACT
In molecular biology, microRNA (miRNA) sponges are RNA transcripts which compete with other RNA transcripts for binding with miRNAs. Research has shown that miRNA sponges have a fundamental impact on tissue development and disease progression. Generally, to achieve a specific biological function, miRNA sponges tend to form modules or communities in a biological system. Until now, however, there is still a lack of tools to aid researchers to infer and analyse miRNA sponge modules from heterogeneous data. To fill this gap, we develop an R/Bioconductor package, miRSM, for facilitating the procedure of inferring and analysing miRNA sponge modules. miRSM provides a collection of 50 co-expression analysis methods to identify gene co-expression modules (which are candidate miRNA sponge modules), four module discovery methods to infer miRNA sponge modules and seven modular analysis methods for investigating miRNA sponge modules. miRSM will enable researchers to quickly apply new datasets to infer and analyse miRNA sponge modules, and will consequently accelerate the research on miRNA sponges.
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Base de dados:
MEDLINE
Assunto principal:
Software
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RNA Mensageiro
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Regulação da Expressão Gênica
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MicroRNAs
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Redes Reguladoras de Genes
Idioma:
En
Ano de publicação:
2021
Tipo de documento:
Article