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Method and equipment for predicting neoantigen epitopes

An antigen epitope and prediction model technology, applied in the biological field, can solve the problem that antigen selection needs to be deepened, and achieve the effect of good quality, high reliability and high sequencing throughput of sequencing results.

Active Publication Date: 2021-04-13
BGI SHENZHEN CO LTD
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  • Claims
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Problems solved by technology

[0004] However, the current research on antigen selection still needs to be in-depth

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  • Method and equipment for predicting neoantigen epitopes
  • Method and equipment for predicting neoantigen epitopes
  • Method and equipment for predicting neoantigen epitopes

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Embodiment 1

[0120] Illumina HiSeq 2000 was used to perform exome sequencing on transplanted tumors and peripheral blood of C57 mouse liver cancer. The tumor group sequencing data is 6.12GB, and the peripheral blood sequencing data is 6.79GB. In the first step, the short sequence alignment software BWA was used to compare the tumor group sequencing data and peripheral blood sequencing data to the mouse reference genome sequence mm9. Step 2: Use the single nucleotide polymorphism (SNP) detection software SOAPsnp to compare the results of tumor sequencing data and peripheral blood sequencing data to detect SNP, and then use the peripheral blood sample as a control to screen out the tumor data. List of somatic single nucleotide non-synonymous mutation sites. The third step is to extract a characteristic mutant peptide with a length of 10 according to the list of single nucleotide non-synonymous mutation sites. Specificity means that the peptide does not exist in the database (Ensembl release...

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Abstract

The present invention provides a method and equipment for predicting neoantigen epitopes. The method for predicting neoantigen epitopes includes: (1) constructing a candidate epitope library, wherein the candidate epitope library is composed of differentially expressed peptides, and the expression differentially Peptides are peptides that differ between samples with the predetermined state and samples without the predetermined state; (2) building a predictive model based on a historical database composed of known antigenic epitope composition; and (3) using at least a subset of the candidate epitope library as an input variable of the prediction model, so as to predict new antigenic epitopes. Using this method of predicting neoantigen epitopes, it is possible to truly determine the mutation information of antigens from the gene level and protein level, and then quickly and effectively obtain neoantigen epitopes that can bind to MHC, and can accurately predict the relationship between antigen epitopes and NHC At the same time, the method is simple and convenient, and can greatly save manpower and material resources.

Description

technical field [0001] The present invention relates to the field of biotechnology, in particular, to neoantigen epitopes and methods and applications for predicting them, more specifically, to methods and equipment for predicting neoantigen epitopes, and to determining the probability of differentially expressed peptides having the properties of epitopes Method and equipment, antigenic epitopes and their use in the preparation of medicines. Background technique [0002] Tumors have the following ten characteristics: self-sufficient growth signals; insensitivity to anti-growth signals; avoidance of immune destruction; tumor-promoting inflammation; abnormal cellular energy; Tissue invasion and metastasis; resistance to cell death. Tumor is the most common genetic disease. All tumors originate from abnormalities in DNA sequences. Therefore, although different tumors have different causes and symptoms, they can all be explained by gene mutations. In recent years, the rapid de...

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): C12Q1/6886C12M1/34G01N33/68G01N33/574G16B30/10C07K7/06A61K38/08A61P35/00
Inventor 林鸿刚刘耿叶晓飞侯勇朱师达吴逵李光磊
Owner BGI SHENZHEN CO LTD
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