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Method for extracting protein interaction relationship

A protein and relationship technology, applied in the field of extracting protein interaction relationships, can solve problems such as poor overall performance, and achieve the effects of improved accuracy, improved accuracy, and good versatility

Inactive Publication Date: 2012-02-01
SUZHOU UNIV
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  • Abstract
  • Description
  • Claims
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Problems solved by technology

[0005] In view of this, the purpose of the present invention is to provide a protein interaction relationship extraction method to solve the problem of poor overall performance in the prior art, while improving versatility and reducing system overhead

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  • Method for extracting protein interaction relationship
  • Method for extracting protein interaction relationship
  • Method for extracting protein interaction relationship

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Embodiment Construction

[0044] For the sake of clarity, the English abbreviations and terms appearing below are explained.

[0045] PPI: Protein-Protein Interaction, protein interaction relationship, refers to a certain interaction relationship between proteins in the process of life activities, such as binding, catalysis, interaction, etc.;

[0046] Syntax tree: Syntactic Parse Tree refers to the hierarchical relationship between different components of natural language sentences (such as vocabulary, parts of speech, phrases and clauses, etc.);

[0047] Relation tree: Relation Tree, the part that can express the structural information of protein relationship instances in the syntax tree;

[0048] Dependency tree: Dependency Tree, a tree formed according to the grammatical relationship between words in natural language sentences, such as the subject-predicate relationship between nouns and verbs;

[0049] Accuracy: Precision refers to the percentage of correct relationship instances among the protei...

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Abstract

The invention discloses a method for extracting protein interaction relationship. The method comprises the following steps: performing syntactic analysis on a natural sentence, determining a complete syntax tree of the natural sentence, and extracting the shortest element path between two protein names from the complete syntax tree; analyzing the dependence relationship of the natural sentence, determining a dependence relationship tree of the natural sentence, and extracting the shortest dependence path between the two protein names from the dependence relationship tree; expanding the shortest element path according to the shortest dependence path, and determining the expanded element path as a relationship tree of the natural sentence; and performing binary classification of the relationship tree by use of a pre-stored classification model. In the extraction method disclosed by the invention, the relationship tree includes abundant structural information; the method has relatively good generality, the precision and recall rate are improved, and the total performance is relatively good; and the system overhead is reduced at the same time.

Description

technical field [0001] The invention belongs to the technical field of text processing, and in particular relates to a method for extracting protein interaction relations. Background technique [0002] As the most important carrier and functional executor of life activities, protein's complex and diverse structures, functions, interactions and dynamic changes can fully reveal life phenomena at multiple levels such as molecules, cells and organisms. Among them, protein-protein interaction (PPI, Protein-Protein Interaction) refers to the relationship between proteins in the process of life activities, such as binding, catalysis, interaction, etc. The study of protein interaction helps to reveal many essential problems of life process. These relationships are of great significance to the establishment of biological knowledge network, the prediction of biological relationship, and the development of new drugs. With the completion of the sequencing of the human genome, the func...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/18
Inventor 钱龙华李寿山周国栋
Owner SUZHOU UNIV
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