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Method for filtering, evolving and classifying proteome and system thereof

A technology of proteome and classification method, applied in the direction of evolutionary organisms, special data processing applications, instruments, etc., can solve problems such as failure to see internal connections, inaccurate genetic relationships, and reconstruction interference of horizontally transferred genetic biological phylogenetic relationships, etc. Achieve perfect classification results, reasonable inference of relationship, and improved classification effect

Inactive Publication Date: 2010-09-22
GRADUATE SCHOOL OF THE CHINESE ACAD OF SCI GSCAS
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Problems solved by technology

There are many kinds of these three types of technologies at present, but they are relatively independent three types of technologies. In the current biological phylogenetic research and biological taxonomy research, the traditional methods of constructing phylogenetic relationships between species are to combine the latter two types of technologies. Combined, but did not see the internal relationship between the first type of technology and the latter two types of technology in the biological sense. In recent years, research on the phenomenon of horizontal gene transfer between species genomes has shown that the existence of horizontally transferred genes has a significant impact on biological phylogenetic relationships. The reconstruction of phylogeny has obvious interference effect, so the phylogenetic relationship between species constructed by traditional methods is inaccurate, and the biological classification system established based on such inaccurate phylogenetic relationship cannot correctly reflect the process of biological evolution. Based on the above considerations, the present invention combines the first type of technology with the latter two types of technology for the first time, adopts the method of proteome filtering, eliminates the factor of horizontal transfer genes that affect the construction of the phylogenetic relationship between species, and improves the traditional system Developmental tree reconstruction method, and provides a reliable classification basis for the study of biological evolutionary classification

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  • Method for filtering, evolving and classifying proteome and system thereof
  • Method for filtering, evolving and classifying proteome and system thereof
  • Method for filtering, evolving and classifying proteome and system thereof

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Embodiment Construction

[0013] The present invention will be described with reference to the accompanying drawings.

[0014] Evolutionary classification method for proteome filtering

[0015] figure 1 is a flowchart of the proteome filtering evolutionary classification method. Such as figure 1 As shown, the following steps are included: raw data acquisition step S110, obtaining the genome data and proteome data of the species to be classified; prediction step S120, predicting the horizontally transferred genes in the genome sequence; filtering step S130, filtering out in the proteome The protein sequence corresponding to the horizontally transferred gene; calculation step S140, using the filtered proteome sequence to calculate the evolutionary distance between species; inferring step S150, using the evolutionary distance between species to infer the phylogenetic relationship between species.

[0016] In the obtaining step S110, the species genome sequence data and proteome sequence data can be fre...

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Abstract

The invention discloses a method for filtering, evolving and classifying proteome and a system thereof. The method comprises the following steps of: an original data acquiring step: acquiring the genome data and the proteome data (S110) of species to be classified; a predicting step: predicting a transversal transfer gene (S120) in a genome sequence based on the genome data; a filtering step: filtering a proteome sequence (S130) corresponding to the transversal transfer gene in the proteome based on the proteome data and the transversal transfer gene; a calculating step: calculating the evolving distance (S140) between the species with the filtered proteome sequence; and an inferring step: inferring a phylogeny relation (S150) between the species by utilizing the evolving distance between the species. According to the invention, existing interference information which is caused by transversal gene transfer during deducing a biogenesis process can be eliminated so that the deduced biogenesis process is more accurate to provide a more reliable classification basis for biological evolution and classification.

Description

technical field [0001] The invention relates to a proteome filtering evolution classification method and a system thereof. Background technique [0002] At present, in the field of bioevolutionary research, there are techniques for predicting horizontally transferred genes in the genome, quantifying the distance of traits between biological species, and inferring overlay trees. There are many kinds of these three types of technologies at present, but they are relatively independent three types of technologies. In the current biological phylogenetic research and biological taxonomy research, the traditional methods of constructing phylogenetic relationships between species are to combine the latter two types of technologies. Combined, but did not see the internal relationship between the first type of technology and the latter two types of technology in the biological sense. In recent years, research on the phenomenon of horizontal gene transfer between species genomes has sh...

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Application Information

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IPC IPC(8): G06F19/00G16B10/00
Inventor 王嵬段红军
Owner GRADUATE SCHOOL OF THE CHINESE ACAD OF SCI GSCAS
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