Microorganism association network prediction method and apparatus

A technology of association network and prediction method, applied in the field of biological information, can solve the problems of inaccurate association inference and component deviation, and achieve the effect of improving accuracy and practicability

Inactive Publication Date: 2016-09-14
TSINGHUA UNIV
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Problems solved by technology

[0007] In view of the above problems, the present invention proposes a microbial association network prediction method and device to solve the problem of inaccurate association inference in the prior art caused by component deviation and the variance of the sequencing data itself

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  • Microorganism association network prediction method and apparatus
  • Microorganism association network prediction method and apparatus
  • Microorganism association network prediction method and apparatus

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[0046] Embodiments of the present invention are described in detail below, examples of which are shown in the drawings, wherein the same or similar reference numerals designate the same or similar elements or elements having the same or similar functions throughout. The embodiments described below by referring to the figures are exemplary only for explaining the present invention and should not be construed as limiting the present invention.

[0047] figure 1 A flow chart showing a method for predicting a microbial association network according to an embodiment of the present invention. refer to figure 1 , the microbial association network prediction method proposed by the embodiment of the present invention specifically includes the following steps:

[0048] Step S11, obtaining the abundance of various microorganisms in the metagenomic sequencing samples, and the measured values ​​of environmental factors corresponding to each metagenomic sequencing sample.

[0049] In pra...

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Abstract

The present invention provides a microorganism association network prediction method and apparatus. The method comprises obtaining abundances of various microorganisms in metagenome sequencing samples and an environmental factor measurement value corresponding to each metagenome sequencing sample; establishing a hierarchical Bayesian model according to a data generation process of each metagenome sequencing sample and the abundances of the various microorganisms and the corresponding environmental factor measurement values in each metagenome sequencing sample; learning the hierarchical Bayesian model by using a maximum posteriori estimation algorithm, and determining an objective function of the hierarchical Bayesian model; optimizing the objective function; and predicting association between the microorganisms and association between the microorganisms and the environmental factor measurement values by using the optimized hierarchical Bayesian model. Accuracy and practicability of prediction tasks of microorganism association and microorganism and environmental factor association are improved.

Description

technical field [0001] The invention relates to the technical field of biological information, in particular to a method and device for predicting a microbial association network. Background technique [0002] The interaction between microorganisms and the influence of environmental factors on microorganisms are key research topics in microbiology. Since most microorganisms cannot be cultivated in the laboratory, this brings great difficulties to the traditional method of using microbial culture to study the interaction. The development of metagenomic sequencing technology has brought the possibility to study these issues. By collecting samples of microorganisms (extracting 16s rDNA), and then performing high-throughput sequencing, the relationship between microorganisms can be speculated through the changes in the number of microorganisms in the sample. and the influence of environmental factors on microorganisms. With the widespread use of metagenomic sequencing technolo...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/24G06F19/18
CPCG16B20/00G16B40/00
Inventor 陈挺陈宁杨煜清
Owner TSINGHUA UNIV
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