Plant whole-genome multilevel biological network reconstruction method based on multi-omics data integration

A whole-genome and biological network technology, applied in the field of multi-level biological network reconstruction of plant whole genome

Inactive Publication Date: 2018-03-30
ZHEJIANG UNIV
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Problems solved by technology

Although the current research on the integration of network models between different omics has not been in-depth, the successive completion of the construction of one-dimensional omics-scale network models has brought new opportunities for the construction of rice multi-dimensional omics-scale network models

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  • Plant whole-genome multilevel biological network reconstruction method based on multi-omics data integration
  • Plant whole-genome multilevel biological network reconstruction method based on multi-omics data integration
  • Plant whole-genome multilevel biological network reconstruction method based on multi-omics data integration

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Embodiment Construction

[0020] In order to describe the present invention more specifically, the technical solutions of the present invention will be described in detail below in conjunction with the accompanying drawings and specific embodiments.

[0021] The plant whole genome multi-level biological network reconstruction method based on multi-omics data integration of the present invention comprises the following steps:

[0022] (1) Collect plant multi-omics data.

[0023] First, the rice genome annotation information and rice metabolism-related information were mined from biological public databases (Tigr, KEGG, RiceCyc, Uniprot, Brenda, etc.), and the information between the databases was integrated to remove erroneous and redundant information in the database. Then, extract the rice gene regulation information from the gene regulation network database (such as RiceNET), and extract the rice protein interaction information from the protein interaction database (such as BIND, PlaPid, PRIN, etc.), f...

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Abstract

The invention discloses a plant whole-genome multilevel biological network reconstruction method based on multi-omics data integration. The method carries out integration on a rice gene regulation andcontrol network, a protein interaction network and a metabolic network to finish the construction of a rice multilevel regulation and control network; and meanwhile, through the integration of expression profile data in different tissue growth processes of the rice, according to the constructed rice multilevel regulation and control network, a specific tissue multilevel gene regulation and control network is constructed so as to construct a first high-quality rice genome scale multilevel biological network of which the current data level is most integral. A new thought is provided for the construction of the plant multilevel biological network, and a constructed rice multilevel gene regulation and control network database realizes the 3D (Three-Dimensional) visualization of the multilevelregulation and control network.

Description

technical field [0001] The invention belongs to the technical field of biological network construction, and in particular relates to a method for reconstructing a plant whole genome multi-level biological network based on multi-omics data integration. Background technique [0002] Molecular biology studies have shown that the process from genotype to phenotype involves multi-level spatiotemporal regulation of various components in the cell and the distribution of metabolites in different organelles or tissues. These regulatory processes basically present a gradual refinement. The cascading hierarchical way: genome to transcriptome, transcriptome to proteome, proteome to metabolome, metabolome to phenotype, and the processes in the middle are interrelated and inseparable. Organisms correspond to the dynamic regulation of multi-level networks in different biological processes, including gene regulatory networks (GRNs), protein interaction networks (PPIs), and metabolic network...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/16G06F19/18G06F19/22G06F19/28
Inventor 陈铭刘丽丽梅茜张子钧俞振泞孙天昊薛继统张霈婧胡大辉
Owner ZHEJIANG UNIV
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