Method for humanbody health assessment anddiseasediagnosis based on human body flora interaction network analysis

A technology of interactive network and flora, applied in the fields of bioinformatics and medical health, can solve problems such as the application limitations of microbial flora research, and achieve the effect of reliable technical support

Active Publication Date: 2018-05-29
KUNMING INST OF ZOOLOGY CHINESE ACAD OF SCI
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0004] Although network analysis has been widely used in computational biology and bioinformatics, such as gene network, protein network, metabolic network, etc., its application in the study of microbial flora is still relatively limited.

Method used

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  • Method for humanbody health assessment anddiseasediagnosis based on human body flora interaction network analysis
  • Method for humanbody health assessment anddiseasediagnosis based on human body flora interaction network analysis
  • Method for humanbody health assessment anddiseasediagnosis based on human body flora interaction network analysis

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0019] Example 1: Comparing the number of special trios in the intestinal flora network of HIV positive and negative persons

[0020] The calculation process of the present invention is as accompanying drawing figure 1 shown

[0021] Data Sources:

[0022] In 2013, McHardy et al. published the microbial data of HIV-positive and negative individuals. The samples were collected from the intestinal mucosa of 20 HIV patients who had not received antiretroviral treatment and 20 healthy people. 16S rDNA fragments were amplified from the sample DNA using universal primers, sequenced using the Illumina HiSeq 2000 sequencing platform, and 97% similarity of microbial taxonomic units (operational taxonomic unit, OTU) was obtained through subsequent bioinformatics analysis, in which each An OTU represents a species, and the sequencing content of the OTU in each sample represents the species abundance of the OTU in the sample.

[0023] Construction of the interaction network of intestin...

Embodiment 2

[0029] Example 2: Comparing the number of special trios in the oral flora interaction network of smokers and non-smokers

[0030] The calculation process of the present invention is as accompanying drawing figure 1 shown

[0031]Data Sources:

[0032] Lazarevic et al published the oral saliva microbial data of smokers and non-smokers in 2010, and collected oral saliva samples of two non-smoking individuals and three smoking individuals at three time points within 29 days. The 16S rDNA fragment was amplified from the sample DNA using universal primers, and the sequence was sequenced on the Genome Sequencer FLX system, and the microbial taxonomic unit (operational taxonomic unit, OTU) with 97% similarity was obtained through subsequent bioinformatics analysis, in which each An OTU represents a species, and the sequencing content of the OTU in each sample represents the species abundance of the OTU in the sample.

[0033] Construction of oral flora interaction network:

[003...

Embodiment 3

[0039] Example 3: Comparing the number of special trios in the skin flora interaction network of AD patients and healthy people

[0040] The calculation process of the present invention is as accompanying drawing figure 1 shown

[0041] Data Sources:

[0042] The skin microbiome data of AD patients and healthy people published by Kong et al. in 2012, samples were collected from the skin samples of 12 AD patients aged 2-15 years and 11 healthy people. The 16S rDNA fragment was amplified from the sample DNA by using universal primers, and after sequencing, a 97% similarity microbial taxonomic unit (operational taxonomic unit, OTU) was obtained through bioinformatics analysis, wherein each OTU represented a species, and each The sequence content of the OTU in a sample represents the species abundance of the OTU in the sample.

[0043] Construction of skin flora interaction network:

[0044] Based on the species abundance of OTUs, the Spearman correlation coefficient R between...

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Abstract

The invention mainly aims at humanbody health assessment and personalized diagnosis of microbial flora relateddiseases, and proposes and validates an assessment and diagnosis method based on human body flora interaction network analysis. The method aims to detect the number of 15 kinds of special function nodes-containing triangle motifs (trios) in a flora interaction network, wherein there are two major categories including a branch with no special function nodes and a branch with function nodes, the branch with no special function nodes is divided in six typesaccording to positive and negative relations between three nodes, and the branch with the function nodes is divided in nine typesaccording to the number of interaction and positive and negative relations of the function nodes and the triangle motifs. The inventor finds that there is significant difference in the number of specific trios in the flora interaction network between experimental group/disease group and healthy controls by analyzing microbial flora data of six human body parts includingintestines, vaginas, lungs, mouths, semenand skin. The method provides an effective reference index forrisk assessment of humanbodyhealth and disease occurrence, and provides reliable technical support for the personalized diagnosis of the microbial flora relateddiseases.

Description

technical field [0001] The invention relates to the fields of biological information technology and medical health, in particular to a method for evaluating body health and diagnosing diseases based on the analysis of human flora interaction network. Background technique [0002] Human commensal bacteria are the normal flora of the human body, and a large number of microorganisms exist in the skin, oral cavity, intestinal tract, respiratory tract, and genitourinary tract. The human microbial flora is closely related to the health and disease of the host. At the same time, the health status of the human body also affects the composition and stability of the microbial flora. With the implementation of the Human Microbiome Project (HMP), more and more studies have shown that microbial flora is closely related to various human diseases, such as colon cancer, pulmonary fibrosis, periodontitis, mastitis, bacterial The occurrence and development of diseases such as vaginosis and d...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): A61B5/00
CPCA61B5/00
Inventor 马占山
Owner KUNMING INST OF ZOOLOGY CHINESE ACAD OF SCI
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