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Method for predicting neoantigen based on polypeptide structural index

A structural and index technology, applied in the field of tumor immunotherapy bioinformatics, which can solve the problems of recurrence, toxic and side effects of tumors, etc.

Pending Publication Date: 2021-10-22
NEOCURA BIO-MEDICAL TECH CO LTD
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

At present, the conventional treatment methods for malignant tumors include surgery, radiotherapy, chemotherapy and targeted therapy. However, the above-mentioned treatment methods have certain limitations and are easily affected by toxic side effects and tumor recurrence.

Method used

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  • Method for predicting neoantigen based on polypeptide structural index
  • Method for predicting neoantigen based on polypeptide structural index
  • Method for predicting neoantigen based on polypeptide structural index

Examples

Experimental program
Comparison scheme
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Embodiment 1

[0041] Such as figure 1 As shown, a method for predicting neoantigens based on peptide structure indicators:

[0042] S01, obtain sample sequencing data

[0043] Specifically, DNA sequencing is performed on tumor samples and normal control samples, and sample sequencing data are obtained. The sample sequencing data includes multiple overlapping or partially overlapping short-read sequences. The difference in the degree of overlap is related to the depth of sequencing. Less than 500X deep sequencing data and normal control 200X deep sequencing data.

[0044] Preferably, the present invention can use whole exome sequencing or panel capture sequencing.

[0045] S02, Identify somatic variants in samples

[0046] Specifically, the first choice is to compare the sequencing data of the tumor sample and the normal control sample to the reference genome, and locate the position of the short-read sequence on the reference genome. Specifically, BWA software can be used to perform sequ...

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Abstract

The invention discloses a method for predicting a new antigen based on a polypeptide structural index, and belongs to the technical field of bioinformatics. The method comprises the following steps: s01, acquiring sample sequencing data; s02, identifying somatic cell variation of the sample; s03, performing sample variation filtration; s04, translating the variation sequence into a protein; s05, segmenting protein fragments, and filtering polypeptides in human normal proteome; s06, predicting a protein fragment structure; s07, calculating corresponding polypeptide structural indexes; s08, screening the new antigen. Based on the indexes of the polypeptide structure, the property of the new antigen can be depicted from the microscopic level, so that an important supplement is provided for a method for screening the new antigen according to molecular biological characteristics.

Description

technical field [0001] The invention belongs to the technical field of tumor immunotherapy bioinformatics, and in particular relates to a method for predicting neoantigens based on polypeptide structural indicators. Background technique [0002] Malignant tumors are one of the most serious diseases to human beings, and the treatment methods for malignant tumors have made great progress in the past few decades. At present, the conventional treatment methods for malignant tumors include surgery, radiotherapy, chemotherapy, and targeted therapy. However, the above-mentioned treatment methods have certain limitations and are easily affected by toxic side effects and tumor recurrence. In recent years, immunotherapy based on activating the immune system to suppress and kill tumor cells has become a new hot spot in the field of malignant tumors. Among them, neoantigen-based immunotherapy has the characteristics of a wide range of effects and less toxic side effects. [0003] Neoan...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G01N33/68G16B30/00
CPCG01N33/6818G16B30/00
Inventor 万季李东汪健赵钊潘有东王弈
Owner NEOCURA BIO-MEDICAL TECH CO LTD
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