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Antibiotic drug resistance gene influence factor and difference analysis method

A technology of drug resistance genes and influencing factors, applied in the field of metagenomics bioinformatics analysis, can solve the problems of poor persuasiveness of differential antibiotic resistance genes and limited ability to annotate antibiotic resistance genes

Pending Publication Date: 2021-05-14
DALIAN UNIV OF TECH
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Problems solved by technology

[0005] In view of the above technical problems, the purpose of the present invention is to provide an antibiotic resistance gene influencing factors and a method for analyzing differences to solve the problems of limited ability to annotate existing antibiotic resistance genes and the poor convincing power of the obtained differential antibiotic resistance genes

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  • Antibiotic drug resistance gene influence factor and difference analysis method
  • Antibiotic drug resistance gene influence factor and difference analysis method
  • Antibiotic drug resistance gene influence factor and difference analysis method

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Embodiment Construction

[0037] The present invention will be further described by the following examples, but these examples should not be used to explain the limitation of the present invention.

[0038] refer to figure 1 , the embodiment of the present invention is as follows:

[0039] 1. Data entry:

[0040] Specifically, the input data includes two parts: the first part is a txt file (sample_information.txt) separated by tabs, the first column and each row contain the sample ID, and the subsequent columns are the corresponding gender, disease status, Region and other phenotype and storage path information; the second part is the sample metagenomic sequencing data file, and the file name and storage path of each sample must be the same as the sample ID and storage path of the first part.

[0041] 2. Annotation of antibiotic resistance genes:

[0042] Specifically, based on the antibiotic resistance gene annotation tool ARGs-OAP and the database SARG v2.0, execute on the linux terminal: sh antib...

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Abstract

The invention discloses an antibiotic drug resistance gene influence factor and difference analysis method. The method comprises the following steps: inputting sample metagenome data and phenotype information of a corresponding sample; annotating the antibiotic drug-resistant gene to obtain an antibiotic drug-resistant gene abundance file; performing antibiotic drug resistance gene influence factor analysis: performing PERMANOVA analysis to obtain a phenotype which has obvious influence on the antibiotic drug resistance gene; carrying out antibiotic drug resistance gene difference analysis: carrying out two-group mean value comparison by utilizing Wilcoxon test and FDR correction, and carrying out more than two-group mean value comparison by utilizing Kruscal-Wallis test, multiple comparison in a PMCMR packet and FDR correction; and judging the change trend of the content of the antibiotic resistance gene. The antibiotic reference database is better adapted to increase of antibiotic resistance sequences, and the multi-module combinatorial analysis method enables analysis of antibiotic resistance genes to be more comprehensive and systematic; and meanwhile, a data set splitting and recombining method is used for obtaining an intersection of multi-data-set analysis results, so that the reliability of the results is improved.

Description

technical field [0001] The invention belongs to the field of metagenomic bioinformatics analysis, and relates to an antibiotic resistance gene influencing factor and a difference analysis method. Background technique [0002] The emergence of antibiotics in the 20th century became a major advance in the history of medicine. Antibiotics, as a class of chemical substances produced by microorganisms (including bacteria, fungi, and actinomycetes) or higher animals and plants in the course of life, have inhibitory or killing effects on certain other pathogenic microorganisms, and have become a part of doctors' prescriptions. Common medicine used to treat infections caused by bacteria, etc. Studies have shown that there are significant differences in antibiotic resistance genes in different regions or disease populations due to differences in culture, lifestyle and other factors. Differences in intestinal microbes in different ages and disease states can also cause changes in an...

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Application Information

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IPC IPC(8): G16B30/00G16H70/40
CPCG16B30/00G16H70/40
Inventor 夏杨柳王晶晶
Owner DALIAN UNIV OF TECH
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