Bioinformatics Databases and Tools on Dietary MicroRNA

  • Juan CuiEmail author
Reference work entry


Empowered by the emerging genomics technology, there has been an increasingly large accumulation of noncoding RNA information, particularly on microRNAs in animals and plants. Research interest in microRNAs originating from food mostly focused on their bioavailability and cross-species transportation and regulation has recently grown due to the potential implication of regulatory role and cofounding impact in human health. This chapter reviews publicly available repositories and bioinformatics tools developed for dietary microRNA research, including the first dietary microRNA database (DMD) that archives microRNA sequence and annotation in various dietary sources, a new small RNA sequencing analytical pipeline focusing on the detection of both endogenous and exogenous microRNAs, and other general computational resources and tools for microRNA target prediction and functional analysis.


Dietary microRNA Exogenous microRNA Bioinformatics microRNA target prediction Small RNA sequencing Dietary microRNA database (DMD) microRNA function microRNA transportation Exosome Gene regulation network Sequence motif 

List of Abbreviations


Dietary microRNA database

miRs, miRNAs



Precursor microRNA


Next-generation sequencing


Kyoto Encyclopedia of Genes and Genomes


Protein-protein interaction


Reads Per Kilobase of transcript per Million mapped reads


Minimum free energy


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© Springer Nature Switzerland AG 2019

Authors and Affiliations

  1. 1.Department of Computer Science and EngineeringUniversity of Nebraska-LincolnLincolnUSA

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