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Prediction system for predicting head and neck squamous cell carcinoma immune subtype

A technology for squamous cell carcinoma and prediction system, which is applied in the field of prediction system for predicting immune subtypes of head and neck squamous cell carcinomas, and can solve the problems of limiting the application of immune typing and so on.

Pending Publication Date: 2021-12-31
SICHUAN UNIV
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0006] Traditional subtype prediction methods rely on sequencing, limiting the use of immunophenotyping in clinical practice

Method used

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  • Prediction system for predicting head and neck squamous cell carcinoma immune subtype
  • Prediction system for predicting head and neck squamous cell carcinoma immune subtype
  • Prediction system for predicting head and neck squamous cell carcinoma immune subtype

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0062] Example 1 Establishing the Immune Subtype Classification Method for Head and Neck Squamous Cell Carcinoma

[0063] 1. The division of intermediate type, immune activation type and immune desert type

[0064] The RNA-seq data, somatic mutation data, clinical follow-up data, and pathological image data of HNSCC patients were downloaded from the TCGA database. A total of 499 HNSCC patients were included for analysis, including 132 females and 367 males with an average age of 61.072 years, including 499 cancer samples and 44 paracancerous samples.

[0065] The list of immune-related genes is derived from the research of Charoentong [Cell Rep, 2017.18(1): p.248-262.], representing the immune cell population in tumor tissue. Based on immune-related RNA-seq and mutation data, the iClusterplusR software package was used to perform multi-omics clustering of patients, such as figure 1 As shown, patients with head and neck squamous cell carcinoma were divided into three immune s...

Embodiment 2

[0080] Example 2 Establishment of a prediction system for predicting immune subtypes of head and neck squamous cell carcinoma

[0081] like image 3 As shown, the purpose of this embodiment is to provide a prediction system for head and neck squamous cell carcinoma classification based on the neural network model by using the pathological slice data of HNSCC. Among them, the three subtypes of typing are intermediate type, immune activation type and immune desert type as described in Example 1.

[0082] First get the data and divide the data into training set, validation set and test set:

[0083] ① Acquire the TCGA database (https: / / www.cancer.gov / about-nci / organization / ccg / research / structural-genomics / tcga), and separate the data sets of three immune subtypes according to the method in Example 1.

[0084] ②Balance the data set, cut and preprocess the original data, and convert it into an atlas of single tiles for training. specifically:

[0085] A total of 493 slices were...

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Abstract

The invention discloses a prediction system for new immune typing of head and neck squamous cell carcinoma, and belongs to the field of artificial intelligence. A multi-omics clustering analysis method is applied for the first time, RNA-seq and somatic mutation data are integrated, and the head and neck squamous cell carcinoma immune typing method with biological significance and clinical value is obtained. It is found for the first time that survival results of immune activation type patients are superior to those of intermediate type and immune desert type patients. Therefore, the immune subtype classification of the invention can be used for predicting the prognosis of the patient with head and neck squamous cell carcinoma, and is helpful for providing reference for individualized treatment. A deep learning method is further adopted, a prediction system for predicting the head and neck squamous cell carcinoma immune subtype is constructed based on clinical pathological image data easy to obtain, and the system is high in prediction accuracy of the head and neck squamous cell carcinoma immune subtype. The immune subtype prediction result can be used for predicting the prognosis of a patient with head and neck squamous cell carcinoma, and is helpful for providing reference for individualized treatment.

Description

technical field [0001] The invention belongs to the field of artificial intelligence, and in particular relates to a prediction system for predicting immune subtypes of squamous cell carcinoma of the head and neck. Background technique [0002] Head and neck squamous cell carcinoma (HNSCC for short) is a malignant tumor with a high degree of malignancy and great harm, and there are about 900,000 new cases every year. Traditional treatment options for this tumor include surgery, radiotherapy, and chemotherapy. Although the quality of life of many patients has improved with the progress of tumor treatment, the 5-year survival rate is still only 50%. [0003] In recent years, immunotherapy has received more and more attention in clinical practice. In squamous cell carcinoma of the head and neck, anti-PD-1 and anti-PD-L1 therapy has been shown to be a promising treatment approach. However, due to the low response rate of immunotherapy, only some patients can benefit from immun...

Claims

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Application Information

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IPC IPC(8): G16B40/00G06K9/62G06N3/04G06N3/08
CPCG16B40/00G06N3/08G06N3/048G06N3/045G06F18/23G06F18/2415
Inventor 徐浩杨丹徐子昂但红霞
Owner SICHUAN UNIV
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