microRNA target position point prediction method based on support vector machine

Abstract

The invention discloses a microRNA target position point prediction method based on a support vector machine, comprising the following steps: 1) building a training data set comprising 278 positive samples and 194 negative samples; 2) building a characteristic set: the sample of each characteristic set is represented by one characteristic vector which contains each aspect information of the miRNA-target position point regulation pair and is divided into six parts, i.e. 128 characteristics; 3) selecting a simplified characteristic set: using a series of characteristic selection algorithms in Weka3 to screen 64 characteristics; 4) result evaluation: comparing the classifying capability of classifiers based on the characteristic set, the simplified characteristic set and the miTarget characteristic set; and 5) function annotation of an miRNA target gene. The invention has the meaning of building a characteristic which is found to be relative with miRNA target position point combination in recent years and developing a set of new miRNA target position point prediction methods; the predictor is optimized by the means of characteristic selection; the detection result comparison shows that the new adopted characteristic can help to predict the miRNA target position point.

Description

technical field [0001] The invention relates to a method for predicting a microRNA target site based on a support vector machine. Background technique [0002] microRNA (miRNA) is a single-stranded non-coding RNA with a length of about 22nt. Because microRNA plays a very important role in the post-transcriptional regulation of gene expression, miRNA has been widely concerned since its discovery. Studies have shown that miRNA has a very important impact on the growth and development of organisms. It is now generally believed that miRNAs achieve their negative regulatory functions by combining complementary to the mRNAs of their target genes, reducing the stability of mRNAs or inhibiting the translation of mRNAs. [0003] Since miRNA plays a pivotal role in many life processes of organisms, the study of miRNA function has been paid more and more attention. So far, more than 8,000 miRNAs have been discovered and recorded in the miRNA database miRBase[1-3], and this number is...

AI Technical Summary

Problems solved by technology

In recent years, with the deepening of animal miRNA research, it has been found that, in addition to the target site region that directly interacts with miRNA, the flanking sequence of the target site, the position of the target site on the 3'UTR and other characteristics are also related to miRNA and miRNA. The binding of target sites is closely related [20-21], and these are not considered by previous prediction methods

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