A Protein Sequence Representation Method Based on Gene Ontology Information

Abstract

The invention relates to a novel protein sequence representation method based on gene ontology information, comprising: using BLAST program to search Swiss-Prot database for all similar protein sequences of protein sequence P, inputting all proteins in a training dataset into GO (gene ontology) database, and searching for GO information of each protein; searching the gene ontology database for targeting gene ontology information of P protein; defining the P protein as discrete vectors of M elements according to M labels that a prediction problem has. The protein GO information in a sequence set is fused into novel P protein vector description, and the dimensionality of the GO method is reduced greatly; by applying the method to protein subcellular multi-label positioning prediction and antibacterial peptide functional multi-label prediction, it is possible to significantly increase the prediction success rate of a related predictor; the novel protein sequence representation method based on gene ontology information has a promising application prospect.

Description

technical field [0001] The invention relates to the technical fields of bioinformatics, protein pseudo-amino acid components and traditional protein sequence analysis, in particular to a new protein sequence representation method based on gene ontology information. Background technique [0002] With the advancement of sequencing technology in the past two decades, bioinformatics has entered the post-genome era. How to analyze hundreds of millions of genome sequences, such as which sub-cells the protein works in, what function it has, what kind of secondary structure, tertiary structure and quaternary structure it has, and how these genes make living organisms active, The answers to a series of questions such as which proteins may be potential drug targets are current research hotspots. [0003] Due to the time-consuming and labor-intensive reasons for the above-mentioned problems using biological experiment techniques, bioinformatics has been greatly developed in recent yea...

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Problems solved by technology

[0008] The technical problem to be solved by the present invention is to provide a new protein sequence representation method based on gene ontology information, aiming to fuse other protein GO information into a new vector description of protein P to solve protein subcellular pair label location prediction low rate problem

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