A Nucleosome Prediction Method Based on Nucleosome DNA Template

Abstract

The invention discloses a nucleosome prediction method based on a nucleosome deoxyribonucleic acid (DNA) template. The nucleosome prediction method is characterized by comprising the following steps of: S1, acquiring a DNA sequence to be predicted, and calculating a tortuosity signal of the DNA sequence to be predicted, wherein the DNA sequence to be predicted is T long; S2, establishing a nucleosome DNA template signal P, wherein the nucleosome DNA template signal P is 147bp long, areas at both ends of the nucleosome DNA template signal P are 50bp wide and 0.07 high; and a middle area is 47bp wide and 0.05 high; convolving the nucleosome DNA template signal P and the tortuosity signal to obtain signals S_covn, and taking out signals S_covn_keep which are T-10 long from the middle part of the signals S_covn; and S3, calculating continuous wavelet transformations W(a, b) of the signals S_covn_keep, wherein the generating function is a Mexican hat function, and the scale range is [2,8]; S3.1, calculating the maximum value M_W(b) of the absolute value of W(a, b). The peak in the maximum value M_W(b) is the equinoctial point position of a nucleosome.

Description

technical field [0001] The invention relates to a method for predicting eukaryotic genome nucleosomes. The prediction method realizes prediction by matching the curvature template of nucleosome DNA. Background technique [0002] Eukaryotic DNA exists in the form of chromatin, and its basic unit is the nucleosome; the nucleosome system is formed by winding ~147bp of DNA around the histone octamer (2 times histone H2A, H2B, H3 and H4) structure, the nucleosomes are linked by connecting DNA. Nucleosome positioning refers to the position of the DNA double helix relative to the histone core, and the protein-binding sites of nucleosomal DNA are blocked and thus unable to bind proteins (transcription factors). Nucleosome positioning regulates basic biological processes such as replication and transcription of eukaryotic genes by masking or exposing protein binding sites. Therefore, predicting nucleosomes is very important for analyzing the transcriptional regulation of genes. Pre...

AI Technical Summary

Problems solved by technology

The disadvantages of this method are: 1. To establish a site frequency matrix, you first need to know a certain number of nucleosomal DNA sequences; 2. To predict the nucleosome genome of different species, you need to establish a different site frequency matrix; 3. Calculate The method is more complicated, and for large-scale genome prediction, the speed is relatively slow

These shortcomings limit the further application of this method

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