Method for carrying out ceRNA prediction based on miRNA target gene prediction and related expression analysis

A target gene prediction and correlation analysis technology, applied in the field of genetic engineering, can solve the problems of limited data volume, failure to meet ceRNA analysis requirements, and ceRNA screening method does not consider the impact of expression, so as to avoid memory overflow.

Active Publication Date: 2019-08-02
南京派森诺基因科技有限公司
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Problems solved by technology

[0004] At present, there are only ceRNA information of individual species in the public database. Some ceRNA screening methods do not consider the impact of expression level, and some software has certain requirements for input data, which cannot meet the general ceRNA analysis requirements.
Some online analysis platforms have restrictions on the amount of data submitted at one time

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  • Method for carrying out ceRNA prediction based on miRNA target gene prediction and related expression analysis
  • Method for carrying out ceRNA prediction based on miRNA target gene prediction and related expression analysis
  • Method for carrying out ceRNA prediction based on miRNA target gene prediction and related expression analysis

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Embodiment Construction

[0022] The present invention will be further described by the following examples, but these examples should not be used to explain the limitation of the present invention.

[0023] see figure 1 , the analysis steps of the present invention are as follows:

[0024] First, it is necessary to prepare the expression data of the RNA and miRNA to be analyzed, and the target gene interaction relationship file between them. Get the final result directly after entering these data. As an example, the method performs the following operations after reading the relevant data. I) The expression correlation between long RNAs was calculated by using the Pearson correlation coefficient, and the results with a correlation coefficient higher than 0.7 were retained. II) Sorting out the relationship between miRNAs and each target gene, and obtaining RNAs that are acted on by common miRNAs. III) According to the number of shared miRNAs among the RNAs, a hypergeometric test is performed, and the...

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Abstract

The invention discloses a method for carrying out ceRNA prediction based on miRNA target gene prediction and related expression analysis. The method is characterized by comprising the following steps:carrying out correlation analysis on a ceRNA action pair; screening potential ceRNA relationship pairs according to the number of common MERs; evaluating the regulation and control function of the miRNA on a pair of competitive lncRNA-mRNA by adopting two scoring modes according to the expression correlation of the miRNA and the ceRNA to the three; and obtaining results of statistical test significance, and sorting the results according to scores. The method for carrying out ceRNA prediction based on miRNA target gene prediction and related expression analysis has the advantages that after the ceRNA is preliminarily analyzed, the inter-gene expression correlation is analyzed according to an actual sequencing result, and the result is screened; different target gene prediction methods areadopted for animals and plants, so that ceRNA prediction analysis can be performed; and information in a common database is integrated, and the reliability of an analysis result is improved.

Description

technical field [0001] The invention relates to the field of genetic engineering, in particular to a method for ceRNA prediction based on miRNA target gene prediction and related expression analysis. Background technique [0002] It is known that microRNA can regulate post-transcriptional expression by binding to RNA, and miRNA binding sites on RNA become miRNA response elements (MERs). RNA molecules with the same MERs elements will compete to bind to the same type of miRNA, thereby indirectly regulating each other. This regulation mechanism is called the ceRNA hypothesis (competing endogenous RNA, Competing endogenous RNAs). [0003] lncRNA, mRNA, circRNA and other RNAs of the same species or different species may compete for the binding of miNRA to form a ceRNA regulatory network. The stability of ceRNA network is of great significance to maintain the normal function of organisms. [0004] At present, there are only ceRNA information of individual species in the public d...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B20/00
CPCG16B20/00Y02A90/10
Inventor 王玲平王智健姜丽荣孙子奎
Owner 南京派森诺基因科技有限公司
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