Looking for breakthrough ideas for innovation challenges? Try Patsnap Eureka!

Method for predicting tumor neoantigen and its application

A prediction method and tumor technology, applied in the field of biomedicine, can solve the problems that tumor vaccines cannot meet the needs of non-response to treatment and produce drug-resistant patients, and achieve the effect of improving accuracy

Active Publication Date: 2019-12-20
BEIJING USCI MEDICAL LAB CO LTD
View PDF6 Cites 12 Cited by
  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0003] Although checkpoint blockade therapy has achieved great clinical success, patient-specific tumor vaccines still cannot meet the clinical needs of patients who do not respond to treatment, develop drug resistance, or cannot tolerate side effects associated with checkpoint blockade drugs

Method used

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
View more

Image

Smart Image Click on the blue labels to locate them in the text.
Viewing Examples
Smart Image
  • Method for predicting tumor neoantigen and its application
  • Method for predicting tumor neoantigen and its application
  • Method for predicting tumor neoantigen and its application

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0057] In this example, the whole exome sequencing and RNA-Seq data of melanocytoma patients were used for testing, which can accurately type HLA-I and HLA-II alleles, and predict that they can be compared with HLA-I Class and HLA-II allele tightly bound neoantigens.

[0058] Specific steps are as follows:

[0059] The tumor tissue and plasma white blood cell samples of a melanoma patient were obtained, and the tumor tissue DNA, RNA and plasma white blood cell DNA were extracted to construct a sequencing library, and whole exome sequencing was performed to obtain sequencing data.

[0060] The data analysis is as follows:

[0061] step 1:

[0062] 1) Plasma leukocyte DNA comparison: Use Fastqc (v 0.11.6) (-t 6) software to count the sequencing quality of plasma leukocyte DNA, and use Cutadapter (v1.2.1) software to remove the sequencing adapters connected when building the library. The software uses the default Parameters, remove sequences whose bases with a quality score le...

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to View More

PUM

No PUM Login to View More

Abstract

The invention discloses a method for predicting a tumor neoantigen and its application. The prediction method includes the following steps: S1, obtaining a tumor sample and a plasma leukocyte sample of a tumor patient, constructing a sequencing library, and performing whole genome, whole exome or targeted capture RNA, DNA sequencing; S2, using the plasma leukocyte DNA as a contrast, comparing thetumor sample DNA and detecting somatic mutation, filtering out a missense mutation site, and annotating the filtered missense mutation site; S3, using the plasma leukocyte DNA sequencing data to typeHLA-I and HLA-II alleles; and S4, predicting antigenic polypeptides that can bind to HLA-I and HLA-II alleles. The method of the present invention can more accurately screen out an antigen that can beexpressed genes and that can bind to HLA-I and HLA-II alleles and cause antitumor immune response.

Description

technical field [0001] The invention relates to the field of biomedical technology, in particular to a method for predicting tumor neoantigens and its application. Background technique [0002] Cancer immunotherapy has achieved great success in the clinical application of checkpoint blockade inhibition. Massively parallel sequencing analyzes suggest a link between tumor mutational burden and response to such treatments. To improve the prediction of response to checkpoint blockade inhibitory therapy and to identify targets for tumor vaccines and adoptive T cell therapy, it is necessary to identify which tumor-specific mutant polypeptides (neoantigens) can induce antitumor T cell immunity. These unique antigenic signatures arise from a large number of somatic genetic mutations that are present only in tumors but not in normal cells. Clinical data show that the polypeptide proteins expressed by these mutant sequences can be recognized by the immune system as non-self and elim...

Claims

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to View More

Application Information

Patent Timeline
no application Login to View More
Patent Type & Authority Applications(China)
IPC IPC(8): G16B20/20G16B20/50G16B25/10G16B30/10G16B50/30
CPCG16B20/20G16B20/50G16B25/10G16B30/10G16B50/30
Inventor 徐冰张静波单光宇伍启熹王建伟刘倩唐宇
Owner BEIJING USCI MEDICAL LAB CO LTD
Who we serve
  • R&D Engineer
  • R&D Manager
  • IP Professional
Why Patsnap Eureka
  • Industry Leading Data Capabilities
  • Powerful AI technology
  • Patent DNA Extraction
Social media
Patsnap Eureka Blog
Learn More
PatSnap group products

Browse by: Latest US Patents, China's latest patents, Technical Efficacy Thesaurus, Application Domain, Technology Topic, Popular Technical Reports.

© 2024 PatSnap. All rights reserved.Legal|Privacy policy|Modern Slavery Act Transparency Statement|Sitemap|About US| Contact US: help@patsnap.com