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RNA sequential characteristic visual extracting method

An extraction method and full sequence technology, applied in the field of visual extraction of RNA full sequence features, can solve problems such as unused biological sequence analysis

Inactive Publication Date: 2005-02-23
SHANGHAI JIAO TONG UNIV
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This method is very effective for modeling complex systems using simpl

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  • RNA sequential characteristic visual extracting method

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Embodiment Construction

[0026] The technical solutions of the present invention will be further described below in conjunction with the accompanying drawings and embodiments.

[0027] The present invention takes SARS virus sequence analysis as an example to illustrate its specific implementation. SARS, formerly known as Severe Acute Respiratory Syndrome, is an acute respiratory infectious disease caused by coronavirus. The present invention downloads the RNA sequences of 66 different SARS viruses from the NCBI website, and the length of each virus sequence is about 29,700. Visualize and analyze these SARS virus sequences, find the basic characteristics of SARS sequences, and compare the differences with non-SARS coronavirus sequences, so that the sequence characteristics of SARS viruses can be used. The RNA sequences of SARS viruses are listed in Table 1, and the RNA sequences of non-SARS coronaviruses are listed in Table 2.

[0028] Table 1: SARS virus sequence

[0029] SARS Accession Len...

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Abstract

A RNA total sequential visual extracting method includes: data preprocessing, rule selecting, cell automatic machine CA method application and sequential image producing, coding every DNA 'A' 'T' 'G' 'U' in obtained RNA sequence, inducing one-dimensional cell automatic machine model, evolving coded '0' '1' gene sequence by selecting special cell automatic machine , forming a '0' '1' two-dimensional matrix through several evolutions, converting two-dimensional matrix into black and white image and contracting, obtaining visual graph with RNA total sequential characteristic. It achieves total sequential analysis, direct view, sensitivity and universal adaptability.

Description

technical field [0001] The invention is a visual extraction method of RNA full sequence features, which involves image processing, pattern recognition and traditional gene sequence analysis technology, which is different from traditional RNA sequence comparison and analysis methods, and can reflect the characteristics of gene sequences more vividly. Background technique [0002] The 21st century is the century of biology. After the completion of the Human Genome Project, biologists turned more attention to gene sequence analysis. In the traditional gene sequence analysis methods, a considerable part is completed by gene sequence comparison. The traditional gene sequence comparison is mainly done by gene alignment and base-by-base alignment, and the typical method is to use very mature software such as BLAST to complete (http: / / www.ncbi.nlm.nih.gov / BLAST). With this software, it is relatively easy to reflect base deletions, insertions, and mutations. Although this method ...

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Application Information

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IPC IPC(8): C12N15/10
Inventor 王猛黄振德杨杰刘国平徐志节姚莉秀
Owner SHANGHAI JIAO TONG UNIV