Ensemble learning method for predicting DNA protein binding site

Abstract

The invention relates to an ensemble learning method for predicting a DNA protein binding site. The method comprises the following steps of obtaining protein sequence data of the DNA protein binding site; preprocessing the protein sequence data of the DNA protein binding site; establishing input data in a one-hot coding mode; combining extracted features, establishing features of amino acid on each protein sequence, and taking the features as the input data; carrying out oversampling on positive sample data through utilization of an SMOTE algorithm; dividing negative sample data into a plurality of parts according to the positive sample quantity, and combining each part of negative samples with the positive samples to form a new data subset, thereby obtaining N data subsets; training eachdata subset through utilization of convolutional neural networks; and integrating results of N convolutional neural networks through utilization of a majority voting method, thereby obtaining a predicting result. According to the method, the DNA protein binding site predicting problem under the imbalance data condition is solved, and the predicting accuracy is improved.

Description

Technical field [0001] The invention relates to the field of bioinformatics, in particular to an integrated learning method for predicting DNA protein binding sites. Background technique [0002] At present, DNA protein binding site detection mainly uses chromatin immunoprecipitation (Chromatin Immunoprecipitation, ChIP) and protein binding microarray (protein binding microarray, PBM). The ChIP-Seq technology, which combines ChIP with second-generation sequencing technology, can efficiently detect DNA segments that interact with histones and transcription factors in the whole genome. The principle of ChIP-Seq is: firstly, the DNA fragments bound by the target protein are specifically enriched by chromatin immunoprecipitation (ChIP), and then purified and library construction is performed; then the enriched DNA fragments are subjected to high pass Quantitative sequencing. Researchers accurately locate the millions of sequence tags obtained on the genome to obtain information abo...

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Problems solved by technology

[0005] However, most of these methods do not take into account the unbalanced nature of the DNA protein binding site data itself, that is, the data of

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