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Method and system for discovering and integrating rectal cancer related genes by utilizing public data resources and analyzing functions of rectal cancer related genes, and application

A resource discovery and public data technology, applied in the fields of medical genomics and computational biology, can solve the problems of not being able to independently complete gene-related bioinformatics analysis and not being good at integrating existing network resources, so as to reduce scientific research costs and improve analysis efficiency effect

Active Publication Date: 2017-08-18
SOUTHEAST UNIV
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Problems solved by technology

[0005] The purpose of the present invention is to provide a method of using public data resources to discover and integrate rectal cancer-related genes and their functional analysis, so as to solve the problems of not being good at integrating existing network resources and not being able to independently complete gene-related bioinformatics analysis

Method used

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  • Method and system for discovering and integrating rectal cancer related genes by utilizing public data resources and analyzing functions of rectal cancer related genes, and application
  • Method and system for discovering and integrating rectal cancer related genes by utilizing public data resources and analyzing functions of rectal cancer related genes, and application
  • Method and system for discovering and integrating rectal cancer related genes by utilizing public data resources and analyzing functions of rectal cancer related genes, and application

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Embodiment

[0102] Firstly, the raw data is filtered, and then low-quality data are removed to obtain effective mRNA normalized expression values. Based on the differential analysis results of mRNA expression data, functional analysis and gene interaction analysis were performed. On the basis of the above analysis, a series of statistical and visual analysis can be carried out.

[0103] 1. The mRNA expression value file is shown in Table 1

[0104] Analysis platform: R platform

[0105] Analysis software: TCGAbiolinks

[0106] Table 1

[0107]

[0108] Explanation of column names:

[0109]

[0110] 2. The results of mRNA expression analysis are shown in Table 2

[0111] Analysis platform: R platform

[0112] Analysis software: TCGAbiolinks

[0113] Table 2

[0114]

[0115] Explanation of column names:

[0116]

[0117] 3. The results of differentially expressed mRNA are shown in Table 3

[0118] Analysis platform: R platform

[0119] Analysis software: TCGAbiolinks...

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Abstract

The invention discloses a method and a system for discovering and integrating rectal cancer related genes by utilizing public data resources and analyzing functions of the rectal cancer related genes, and an application. Based on the public data resources, open big data resources and diversified bioinformatics analysis means are reasonably used for performing analysis processing on mRNA expression data, and important genes related to complex diseases and functions of the important genes are identified. The method comprises the steps of sample data downloading and management; gene expression data analysis; difference expression gene screening; and gene function analysis and protein interaction analysis. According to the method and the system, the problems of weakness in integrating existing network resources, unfamiliarity with mRNA related most common databases and frontal analysis methods, incapability of independently finishing mRNA expression spectrum related bioinformatics analysis and the like can be solved; a plurality of risk pathways and genes related to the complex diseases such as the rectal cancer and the like can be discovered; and the method and the system are of important significance for biological targeted treatment of the complex diseases, biological drug research and development, pathogenesis explanation and risk prediction.

Description

technical field [0001] The invention relates to the fields of medical genomics and computational biology, in particular to a method for using public data resources to discover and integrate rectal cancer-related genes and their function analysis. Background technique [0002] Gene is the basic unit of heredity. It determines the traits of organisms and the growth and development of organisms, and there is a very close relationship between genes and diseases and physiological characteristics. The goal of the "Human Genome Project" is to elucidate the entire sequence of human genes and decipher human genetic information as a whole, so that human beings can fully understand themselves at the molecular level for the first time. The research on "human genome" has entered the stage of "functional genome" from the stage of "structural genome", mainly through the analysis of massive biological data to further clarify the biological function of the genome. Therefore, bioinformatics...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/18
CPCG16B20/00
Inventor 陈瑞高娜李晓波孟庆涛吴申申
Owner SOUTHEAST UNIV
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