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Senile dementia gene and site screening method based on improved Mendelian randomization

A screening method, a technology for senile dementia, applied in the fields of genomics, instrumentation, proteomics, etc., can solve problems such as less obvious

Pending Publication Date: 2019-10-18
HARBIN INST OF TECH
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

Through GWAS, we can obtain a large number of SNPs related to AD, some of which are very significant, but there are also less significant parts, and the SNPs that are not significant in eQTL may become significant

Method used

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  • Senile dementia gene and site screening method based on improved Mendelian randomization
  • Senile dementia gene and site screening method based on improved Mendelian randomization
  • Senile dementia gene and site screening method based on improved Mendelian randomization

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0032] Embodiment one: if figure 1 As shown, the specific steps of the Alzheimer's disease gene and site screening method based on improved Mendelian randomization involved in this embodiment are:

[0033] Step 1: Take GWAS data as x, eQTL data as y, and SNP data as z;

[0034] Step 2: Get the effect b of z on x zx , the effect of z on y is b zy ;

[0035] Step 3: According to b xy =b zy / b zx get the effect b of x on y xy ;

[0036] Step 4: Calculate the Z statistic Z-score of the SNP in the eQTL dataset, denoted as z zy ;

[0037] z zy =b zy / SE

[0038] b zy is the beta in the GWAS data set, where beta is the parameter that comes with the data set, and is the regression parameter of the gene and expression; SE is the variance;

[0039] Step 5: Calculate the Z-score of the corresponding SNP in the GWAS dataset, denoted as z zx

[0040] z zx =b zx / SE

[0041] Step 6: Calculate the statistic T smr

[0042]

[0043] T smr Obey the chi-square distributi...

Embodiment 2

[0050] Embodiment two: if figure 1 As shown, a method for screening Alzheimer's disease genes and loci based on improved Mendelian randomization involved in this embodiment, in the first step, y is set as the phenotype, that is, the output variable, and x is set as the expression of the gene That is, the exposure factor, and z is set as the gene mutation, that is, the instrumental factor.

Embodiment 3

[0051] Embodiment three: as figure 1 As shown, a method for screening Alzheimer's disease genes and loci based on improved Mendelian randomization involved in this embodiment, in the second step b zx is the effect of gene mutation on gene expression, b zy Effect of genetic mutation on phenotype.

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Abstract

The invention provides a senile dementia gene and site screening method based on improved Mendelian randomization, and belongs to the field of Alzheimer's disease related gene and site screening. Themethod comprises the specific steps: taking GWAS data as x, taking eQTL data as y, and taking SNP data as z; obtaining the effect bxy of x on y, the effect bzx of z on x, and the effect bzy of z on y;defining bxy: bxy = bze / bzx; calculating Z-score of SNP in an eQTL dataset; calculating Z-score of corresponding SNPs in a GWAS dataset; calculating a statistic Tsmr and obeying chi-square distribution with a degree of freedom of 1; performing the chi-square test of Tsmr and solution of P-value; and screening the values according to the sizes of the P-value. More genes and sites related to AD arediscovered, the risk of illness can be predicted during gene screening, and the method has extremely important significance for research and development of gene targeted drugs. Under the extreme condition, a gene knockout operation can be carried out to enable a patient to recover.

Description

technical field [0001] The invention relates to a method for screening Alzheimer's disease genes and sites based on improved Mendelian randomization, and belongs to the field of screening genes and sites related to Alzheimer's disease. Background technique [0002] Aging is a universal law in the biological world, and every organism will inevitably experience the process of aging. The study of the mechanism of aging is an important part of uncovering the essence of aging and preventing and treating senile diseases. In the process of aging, neurodegenerative diseases such as Alzheimer's Disease (AD) play a very important role. Many studies have shown that neurodegenerative diseases such as Alzheimer's disease are closely related to aging. , there are many interactions between them. Neurodegenerative diseases (Degenerative diseases of the central nervous system, ND) is a general term for a group of diseases characterized by degenerative changes in neurological function, incl...

Claims

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Application Information

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IPC IPC(8): G16B20/20G16B25/10
Inventor 胡杨程亮徐培刚赵天意张凝一
Owner HARBIN INST OF TECH
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