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Tumor-specific gene identification method based on pls multi-perturbation integrated gene selection

A gene selection and identification method technology, applied in the interdisciplinary field of computing science and life science, can solve the problem of insufficient insight into the whole picture of complex genetic mechanisms, and achieve reliable molecular diagnosis and treatment, strong discrimination ability, and small length

Active Publication Date: 2022-03-22
FUQING BRANCH OF FUJIAN NORMAL UNIV
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Problems solved by technology

Clearly, the resulting individual gene subsets are often insufficient to gain insight into the full picture of complex genetic mechanisms

Method used

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  • Tumor-specific gene identification method based on pls multi-perturbation integrated gene selection
  • Tumor-specific gene identification method based on pls multi-perturbation integrated gene selection
  • Tumor-specific gene identification method based on pls multi-perturbation integrated gene selection

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Embodiment Construction

[0046] The present invention will be further described below in combination with implementation modes and examples.

[0047] Such as figure 1 As shown, this embodiment provides a method for identifying tumor-specific genes based on PLS multi-perturbation integrated gene selection, including the following steps:

[0048] Step S1: Establish a multi-response variable PLS model, use the SIMPLS algorithm to solve the multi-response variable PLS model, and realize polygenic measurement based on PLS;

[0049] Step S2: Using the PLS-based multi-gene measurement method, under the framework of multi-perturbation integrated gene selection, perform gene selection based on PLS integration on the sample data, and obtain the gene list of the sample data;

[0050] Step S3: Using the base classifier, identify the top k genes with the highest recognition rate from the above sorted gene list to form a tumor-specific gene subset.

[0051] In this example, gene selection is from the original hig...

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Abstract

The present invention relates to a tumor-specific gene identification method based on PLS multi-perturbation integrated gene selection. Aiming at the characteristics of tumor microarray data, different perturbation mechanisms are introduced to provide an analysis framework for multi-perturbation integrated gene selection; using PLS multi-gene measurement method, a new PLS-based integrated gene selection method was developed under this framework. On the one hand, the method of the present invention is based on the overall effect of subsets, and can quickly identify genes with differential expression, and at the same time identify genes with weak differential expression signals; on the other hand, the method of the present invention is based on multiple perturbation mechanisms , which can identify a series of different gene subsets with small length and strong discriminative ability. Therefore, the method of the present invention can identify a series of different gene subsets and weakly differentially expressed genes, through which the specific expression patterns of tumor genes can be more comprehensively understood.

Description

technical field [0001] The invention relates to the interdisciplinary technical field of computing science and life science, in particular to a tumor-specific gene identification method based on PLS multi-perturbation integrated gene selection. Background technique [0002] Tumor is a complex genetic disease, which is caused by abnormal expression of intracellular genes due to DNA damage on some chromosomes, and is a complex disease characterized by uncontrolled cell growth, lack of differentiation and abnormal proliferation. Tumor gene microarray (Microarray) can explore and explain the occurrence, development and formation of complex and diverse tumor diseases at the molecular level. For high-throughput gene expression profile data, machine learning and other technologies can be used to identify specific genes and their functions related to complex tumor diseases, which is of great significance for studying the disease mechanism of tumors and predicting the disease types o...

Claims

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): G16B20/20
Inventor 游文杰甘胜进
Owner FUQING BRANCH OF FUJIAN NORMAL UNIV
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