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Gene ontology mapping system and method based on JSON

A gene ontology and version technology, applied in the field of data migration and ontology mapping, to achieve the effect of efficient data interaction, speeding up the response speed, and reducing the occupancy rate

Active Publication Date: 2021-01-05
NANKAI UNIV
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Problems solved by technology

[0004] Aiming at the bottleneck problem of gene ontology data interaction and sharing among heterogeneous web platforms caused by lack of effective mapping mechanism, the present invention provides a JSON-based gene ontology mapping system and method

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  • Gene ontology mapping system and method based on JSON
  • Gene ontology mapping system and method based on JSON

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specific Embodiment approach

[0023] Such as figure 2 As shown, the JSON-based Gene Ontology mapping system consists of five cores: Gene Ontology data preprocessing, data extraction, data conversion, data storage, and visualization. The operating terminals include client web pages and mobile terminals. The specific implementation is as follows:

[0024] (1) Through the operation terminal, the user uploads the gene ontology to the server for management through the network.

[0025] (2) The data preprocessing module receives the operation terminal processing request, initializes the server-side gene ontology object, loads the gene ontology data, and identifies the multi-granularity metadata information of the gene ontology.

[0026] (3) The data extraction module will combine the semi-supervised learning method to extract the gene ontology hierarchical relationship, category features and metadata-attribute value and other metadata information layer by layer.

[0027] (4) The data conversion module will ma...

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Abstract

The invention discloses a gene ontology mapping system and method based on JSON. The gene ontology mapping system comprises automatic identification and data extraction of a gene ontology, a mapping mechanism from the gene ontology to the JSON and gene ontology data storage based on the JSON. The method comprises the following specific steps: identifying metadata information in a gene ontology, and obtaining three types of relationship characteristics, namely a cell component, a molecular function and a biological process, as well as three relationship characteristics, namely a parent-child relationship ( is_a ), a partial relationship ( part_of ) and a regulatory relationship ( regulates ), in the metadata of the gene ontology; establishing a one-to-one correspondence mapping rule of thegene ontology metadata characteristics and a JSON model, and completing metadata extraction by adopting a semi-supervised learning method; and constructing a JSON-based gene ontology storage model, and completing data migration from the gene ontology to the JSON. According to the method, the mapping model of the gene ontology and the JSON is established, the problem that the gene ontology data cannot be automatically converted into the JSON data is solved, and efficient data interaction and sufficient sharing of the gene ontology between heterogeneous Web platforms are achieved.

Description

technical field [0001] The invention relates to data migration and ontology mapping technology, in particular to a JSON-based gene ontology mapping system and method. Background technique [0002] After the completion of the 21st Century Human Genome Project, major developed countries represented by the United States have launched a large number of life science basic research programs, driving the explosive growth of various genomics, disease and other related biological databases. Due to the differences in the data description methods of various biological databases, there is a large amount of semantically heterogeneous information. In order to make full use of the knowledge contained in these biological databases, biological ontologies are widely used in academia and industry to integrate heterogeneous biological knowledge. As a widely used biological ontology, Gene Ontology is mainly used to describe the attributes of genes and gene products, such as cellular components,...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): H04L29/08G06F16/21
CPCH04L67/02H04L67/06G06F16/214H04L67/563H04L67/565
Inventor 刘健陈娇陈萍
Owner NANKAI UNIV
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