Method for predicting N6-methyladenosine modification site in RNA based on stacking integration

Abstract

The invention discloses a method for predicting an N6-methyladenosine modification site in RNA based on stacking integration, belonging to the field of systems biology. The method comprises the following steps: extracting RNA sequence features of three species, namely saccharomyces cerevisiae, homo sapiens and arabidopsis thaliana through six feature extraction methods, and conducting feature fusion to obtain an initial feature space of an original data set; performing dimensionality reduction on the initial feature space by using an elastic network, eliminating redundant and noise features, and reserving important features related to model classification so as to obtain an optimal feature set; inputting optimal feature subsets and corresponding category labels into stacking integration for model training, and evaluating the prediction performance of a model in combination with evaluation indexes to obtain a prediction model; and inputting a to-be-predicted RNA sequence in a test set into the prediction model, predicting the m6A site and outputting the m6A site. The prediction accuracy of the model on the test set reaches 92.30% and 87.06% respectively, and the model has good development potential in the aspect of cross-species prediction and is expected to become a useful tool for identifying the m6A site.

Description

technical field [0001] The invention belongs to the field of systems biology, and relates to N in RNA based on stacking integration 6 - Methyladenosine modification site prediction method. Background technique [0002] The completion of the Human Genome Project has greatly promoted people's understanding of genetic organization information, transmission and expression rules, and at the same time made us aware of the extraordinary complexity of the expression mechanism of genetic information in cells. As the key link of the central dogma, RNA closely connects the genetic material DNA and the executor protein of life activities. Studies have shown that there are more than 100 chemical modifications in RNA, and these chemical modifications are mainly methylated, including: 5-methylcytosine (m 5 C), N 1 -Methyladenine (m 1 A), 5-hydroxymethylcytosine (hm 5 C), pseudouracil (ψ), N 6 -Methyladenine (m 6 A) etc. N discovered in the 1970s 6 -Methyladenosine (m 6 A) is a co...

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Problems solved by technology

[0005]Although researchers have made great contributions to the modification of RNA methylation and proposed many models to predict the m6A site, but Predictive models are mostly based on a single traditional classifier or restricted to a single species

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