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Recommendation model based miRNA target gene prediction method

A target gene prediction and target gene technology, applied in the field of systems biology, can solve problems such as complex miRNA relationships

Active Publication Date: 2016-07-27
CENT SOUTH UNIV
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Problems solved by technology

However, due to factors such as the complex relationship between miRNAs and their target genes, there are still many challenges in the existing methods for predicting these miRNA target genes.

Method used

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  • Recommendation model based miRNA target gene prediction method
  • Recommendation model based miRNA target gene prediction method
  • Recommendation model based miRNA target gene prediction method

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Experimental program
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Embodiment 1

[0055] see Figure 1-8 , the miRNA target gene prediction method based on the recommended model is implemented in the following steps:

[0056] 1. Analysis of miRNA target gene data distribution characteristics (based on miRTarBase database)

[0057] At present, the databases that record miRNA target genes that have been verified by biological experiments include miRTarBase, miRwalk, TarBase, etc. Among them, miRTarBase is the most commonly used, so statistical analysis is performed on it. Since the release of the first version 1.6 in December 2010, the miRTarBase database has released a total of 11 versions to version 6.1 in October 2015. The miRTarBaseV6.1 database contains 463,483 miRNA target gene relationship data of 18 species including humans, among which the human miRNA target gene relationship data reaches 410,620. figure 1 Shown is the histogram of the number of miRNA target genes in these 11 versions. It can be seen from the figure that, especially in the past two...

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Abstract

The present invention discloses a recommendation model based miRNA target gene prediction method (miRTRS). The method comprises: constructing a bipartite graph of an miRNA and a gene by using experimentally verified miRNA target gene data; on this basis, calculating a possibility that one gene is an miRNA target gene by using a bipartite graph based recommendation algorithm, and introducing biological data, i.e. sequence similarity between miRNAs into the recommendation algorithm; and finally, sorting recommendation values in a descending order, and taking what is ranked at the front as an miRNA target gene relation. The method disclosed by the present invention is simple and easy for use; and compared with the existing miRNA target gene prediction method, the method provided by the present invention is significantly improved on the aspects of accuracy, sensitivity and specificity of prediction, and provides valuable reference information for scientists to perform experiments and further study of miRNA target gene discovery.

Description

technical field [0001] The invention belongs to the field of systems biology and relates to a method for predicting miRNA target genes based on a recommended model. Background technique [0002] microRNA (miRNA) is a type of short single-stranded endogenous non-coding RNA (about 22 nt) that can regulate gene expression. It selectively binds to complementary mRNA to inhibit protein production. in the organism. It is generally believed that miRNA binds to a specific site in the 3' non-coding region of mRNA, leading to the degradation of mRNA, or inhibiting the expression of target genes, resulting in gene silencing, thereby effectively inhibiting the synthesis of related proteins. miRNA plays an important role in many life processes such as cell development, stress response, virus infection, cancer, heart disease and so on. Although people's research on miRNA is still not very deep, and its function is not very clear, but studies have shown that miRNA plays an important role...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/20
CPCG16B25/00
Inventor 蒋辉王建新李敏颜晓东王劭恺
Owner CENT SOUTH UNIV
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