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miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data.
Zhang, Junpeng; Liu, Lin; Xu, Taosheng; Zhang, Wu; Zhao, Chunwen; Li, Sijing; Li, Jiuyong; Rao, Nini; Le, Thuc Duy.
Afiliación
  • Zhang J; Center for Informational Biology, School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, Sichuan, China.
  • Liu L; School of Engineering, Dali University, Dali, Yunnan, China.
  • Xu T; UniSA STEM, University of South Australia, Mawson Lakes, SA, Australia.
  • Zhang W; Institute of Intelligent Machines, Hefei Institutes of Physical Science, Chinese Academy of Sciences, Hefei, Anhui, China.
  • Zhao C; School of Agriculture and Biological Sciences, Dali University, Dali, Yunnan, China.
  • Li S; School of Engineering, Dali University, Dali, Yunnan, China.
  • Li J; School of Engineering, Dali University, Dali, Yunnan, China.
  • Rao N; UniSA STEM, University of South Australia, Mawson Lakes, SA, Australia.
  • Le TD; Center for Informational Biology, School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, Sichuan, China.
RNA Biol ; 18(12): 2308-2320, 2021 12.
Article en En | MEDLINE | ID: mdl-33822666
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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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Programas Informáticos / ARN Mensajero / Regulación de la Expresión Génica / MicroARNs / Redes Reguladoras de Genes Límite: Humans Idioma: En Revista: RNA Biol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2021 Tipo del documento: Article País de afiliación: China Pais de publicación: Estados Unidos
Texto completo
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XML
PubMed Links
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Programas Informáticos / ARN Mensajero / Regulación de la Expresión Génica / MicroARNs / Redes Reguladoras de Genes Límite: Humans Idioma: En Revista: RNA Biol Asunto de la revista: BIOLOGIA MOLECULAR Año: 2021 Tipo del documento: Article País de afiliación: China Pais de publicación: Estados Unidos