Set of genes for head and neck squamous cell carcinoma (HNSCC) molecular typing and application thereof

A squamous cell carcinoma and molecular typing technology, which is applied in the field of preparation of kits for molecular typing of head and neck squamous cell carcinoma, can solve the problem of inability to guide HNSCC personalized treatment, limited research, and inaccurate evaluation methods Advanced problems to achieve the effect of improving the ability of clinical treatment, strengthening the rationality and accuracy

Active Publication Date: 2016-06-15
SOUTHERN MEDICAL UNIVERSITY
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  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0007] The present invention is relatively limited in the current HNSCC typing method, especially the research on the HNSCC molecular typing gene group of the Chinese population is very limited, the existing evaluation method is not accurate, and cannot guide the clinical personalized treatment of HNSCC and other issues , providing a set of genes and detection kits for molecular typing of HNSCC

Method used

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  • Set of genes for head and neck squamous cell carcinoma (HNSCC) molecular typing and application thereof
  • Set of genes for head and neck squamous cell carcinoma (HNSCC) molecular typing and application thereof
  • Set of genes for head and neck squamous cell carcinoma (HNSCC) molecular typing and application thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0022] Example 1 Screening to Assess HNSCC Molecularly Typing Genomes

[0023] Through the EPIG gene expression profiling analysis program, 789 cases of HNSCC tumor gene whole gene sequencing, exome sequencing, RNA sequencing, gene expression chip and clinical variable related data that have been published or stored in databases such as TCGA and COSMIC were analyzed to screen and evaluate HNSCC molecules Typing Genomes. Analysis included unsupervised cluster analysis to identify expression profiles and associated genes; stability analysis of candidate genes. Firstly, the correlation coefficient of each gene in 789 samples was calculated by cluster analysis and clustered to form a gene-specific expression profile (r>0.7, P0.7, P<0.001). Experimental results: The 18 genes with the highest scores for evaluating the molecular typing of HNSCC were screened, and the gene list is shown in Table 1 below.

[0024] Table 1: 18 genes that can be used to assess molecular typing of HNSC...

Embodiment 2

[0026] Example 2 Molecular typing of HNSCC assessed by digital PCR method and gene expression microarray

[0027] In this example, digital PCR and gene expression chip methods were used to detect the expression levels of 18 genes screened in Example 1 in paraffin-embedded tumor tissues and their matched paracancerous tissues of 100 groups of Chinese HNSCC patients. The primers and probes used in digital PCR detection were designed according to the complete human gene sequence released by NCBI (National Center for Biotechnology Information), using Primer Premier 5.0, and synthesized by Gene Synthesis Company (Shanghai Sangong). The nucleotide sequences of the primers are shown in Table 2 below (SEQ ID No. 1 to SEQ ID No. 36 in the sequence listing), and the nucleotide sequences of the probes are shown in Table 3 below (SEQ ID No. 37 to SEQ ID No. 54 in the sequence listing.

[0028] Table 2: PCR primer sequences for 18 genes that can be used to assess molecular typing of HNSC...

Embodiment 3

[0039] Example 3 Molecular typing of HNSCC assessed by gene expression microarray

[0040] In this example, the gene expression microarray method was used to detect the expression levels of the 18 genes screened in Example 1 in the same 100 groups of Chinese HNSCC patient paraffin-embedded tumor tissues and their matched paracancerous tissues as in Example 2 . The probes used in the gene expression chip were designed according to the human whole gene sequence published by NCBI (National Center for Biotechnology Information), using Primer Premier 5.0, and synthesized by Gene Synthesis Company (Shanghai Sangong). The nucleotide sequences of the probes are shown in SEQ ID No. 37 to SEQ ID No. 54 in the sequence listing.

[0041] The gene expression chip is to immobilize a large number of DNA fragments or oligonucleotide fragments of specific sequences on glass, silicon wafers and other carriers at high density in a matrix through microelectronic technology and microprocessing ...

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Abstract

The invention provides a set of genes for head and neck squamous cell carcinoma (HNSCC) molecular typing. The set of genes comprises TP53 gene, CDKN2A gene, FAT1 gene, CASP8 gene, AJUBA gene, PIK3CA gene, NOTCH1 gene, KMT2D gene, NSD1 gene, HLA-A gene, HRAS gene, FBXW7 gene, RB1 gene, PIK3R1 gene, TRAF3 gene, NFE2L2 gene, CUL3 gene and PTEN gene. The invention also provides application of the genes in preparing a kit and gene chip for HNSCC molecular typing, and a kit and gene chip for HNSCC molecular typing prepared by using the genes. The genes can enhance the HNSCC typing rationality and accuracy, thereby providing key technical supports for implementing early diagnosis, effective interception and individualized treatment on HNSCC.

Description

technical field [0001] The invention relates to a group of genes for molecular typing of squamous cell carcinoma of the head and neck and its application in preparing a kit for molecular typing of squamous cell carcinoma of the head and neck. Background technique [0002] Head and neck squamous cell carcinoma (HNSCC) is one of the most common malignant tumors in the head and neck, mainly including lip cancer, gum cancer, tongue cancer, soft and hard palate cancer, jaw cancer, mouth floor cancer, oropharyngeal cancer , salivary gland cancer, maxillary sinus cancer, and cancers that occur in the skin and mucous membranes of the face. In a broad sense, oral cancer includes cancers that occur below the orbit and above the neck. Most of them are squamous cell carcinomas, collectively referred to as head and neck cancer. Squamous cell carcinoma, China and other developing countries are high incidence areas of HNSCC. The global HNSCC mortality rate ranks sixth in the cancer mortal...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/68C12N15/11
CPCC12Q1/6886C12Q2600/158
Inventor 宁云山李妍
Owner SOUTHERN MEDICAL UNIVERSITY
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