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Method for forecasting gene transferring horizontally in genome

A technology of horizontal transfer and gene prediction, applied in the direction of gene model, etc., can solve problems such as low hit rate and unsatisfactory hit rate

Inactive Publication Date: 2009-09-16
INST OF SEMICONDUCTORS - CHINESE ACAD OF SCI
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Problems solved by technology

But the hit rate of these two algorithms is not very ideal, especially the W8 algorithm, the hit rate is very low in some bacterial groups

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  • Method for forecasting gene transferring horizontally in genome
  • Method for forecasting gene transferring horizontally in genome
  • Method for forecasting gene transferring horizontally in genome

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[0019] In order to make the object, technical solution and advantages of the present invention clearer, the present invention will be described in further detail below in conjunction with specific embodiments and with reference to the accompanying drawings.

[0020] The invention is a method for predicting horizontally transferred genes by utilizing the theory of bionic pattern recognition. Among them, the statistical method is firstly used to extract gene sequence features, and then the genes are converted into points in high-dimensional space, and then the manifold of similar samples in high-dimensional space is analyzed, and then the geometry covering the sample subspace is determined, and then the network is constructed, and then Use the constructed network to predict horizontally transferred genes.

[0021] For gene sequences, we use statistical methods to extract sequence features. In the experiment, the FCU method based on statistical absolute codon usage frequency is u...

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Abstract

The invention discloses a method for forecasting genes transferring horizontally in a genome by utilizing a bionic pattern identification principle, which comprises the steps of: utilizing the homologous continuity-based bionic pattern identification principle to forecast the gene transferring horizontally in genome, extracting features of gene sequences, transforming the gene into points in a higher dimensional space, analyzing the point distribution of the same sample in the higher dimensional space, determining a constructing network of a geometric solid covering the sample subspace and forecasting the gene transferring horizontally.

Description

technical field [0001] The invention relates to a method for predicting horizontally transferred genes, in particular to a method for predicting horizontally transferred genes by using the principle of bionic pattern recognition to construct a similar gene training network. Background technique [0002] Horizontal gene transfer (HGT), also known as lateral gene transfer (LGT), refers to the exchange of genetic material between different organisms or between organelles in a single cell. Differential biological individuals can be biological individuals of the same species but with different genetic information, or distant or even unrelated biological individuals. With the completion of the genome sequencing of humans and other organisms, it has been found that there are a large number of homologous genes in the genomes of different species, and even distantly related organisms, further confirming the universality and distantness of horizontal gene transfer . The prediction o...

Claims

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Application Information

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IPC IPC(8): G06N3/12
Inventor 陈阳王守觉
Owner INST OF SEMICONDUCTORS - CHINESE ACAD OF SCI
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