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Construction method and application of gene model for prognosis of triple negative breast cancer

A triple-negative breast cancer and construction method technology, applied in the field of gene model construction, can solve the problems of loss of function, inability to benefit, and median overall survival of less than one year, and achieve the effect of good predictive ability

Inactive Publication Date: 2022-05-13
南京墨宁医疗科技有限公司
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  • Abstract
  • Description
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Problems solved by technology

Secondly, TNBC cannot benefit from endocrine therapy and anti-HER-2 targeted therapy, and chemotherapy has become the main adjuvant therapy for TNBC patients
However, with increasing drug resistance, effective chemotherapy for TNBC is limited, and even with active treatment, the median overall survival of patients with metastatic triple-negative breast cancer is less than one year
Homologous recombination deficiency (HRD) due to loss of function of BRCA1 or BRCA2

Method used

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  • Construction method and application of gene model for prognosis of triple negative breast cancer
  • Construction method and application of gene model for prognosis of triple negative breast cancer
  • Construction method and application of gene model for prognosis of triple negative breast cancer

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0050] In this study, the clinical characteristics and RNA-sequencing data of 123 TNBC tumor samples were collected from the TCGA database, and the HRD grouping was determined based on the genomic data, and then a prognostic model of the HRD transcriptome was constructed and compared with the genomic HRD ratings for comparison.

[0051] 1 Data collection and preprocessing

[0052] S1. Obtain triple-negative breast cancer sample data from the database as a training set:

[0053] TCGA (The Cancer Genome Atlas) BC mRNA expression profiles (TCGA-BRCA cohort) and associated clinical information were downloaded from the Genome Data Commons data portal (https: / / portal.gdc.cancer.gov / ). Data were normalized and processed using R (version 3.6.0) software. The HRD information of tumor samples can be obtained from HRD related data (see HRD score: PMID: 29617664, TCGA_DDR_Data_Resources.xlsx format: DDR footprint), tumor samples are divided into HRD tumor samples (HRD score ≥ 42) and no...

Embodiment 2

[0067] Example 2: Validation of the predictive performance of the risk scoring model:

[0068] 2.1 Compared with the verification set:

[0069] According to the gene expression level and the risk coefficient of each gene, the risk score of each patient is calculated, and the median risk score of each model is used as the threshold, and the samples are divided into high-risk and low-risk groups to draw the Kaplan-Meier curve and model The risk factor linkage map of the evaluation, compared with the low-risk group, judges the prognosis difference between the high-risk group and the low-risk group, and Kaplan-Meier survival analysis shows that the prognosis of the high-risk group is significantly poorer (P Figure 6a , Figure 6b ). The GSEGSE103091 data set was obtained from the Gene Expression Omnibus (GEO) database as a verification set, and the risk scoring model of the present invention was used for survival analysis, and the Kaplan-Meier curve was drawn ( Figure 10), the ...

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Abstract

The invention discloses a construction method and application of a gene model for triple-negative breast cancer prognosis, and belongs to the technical field of biomedicine, and the construction method is characterized by comprising the following steps: acquiring sample data of triple-negative breast cancer patients from a database, screening out differential genes in combination with HRD scores, and constructing a gene model for triple-negative breast cancer prognosis on the basis of the differential genes. The key genes related to prognosis of the triple-negative breast cancer are screened out, the risk scoring model is constructed based on the key genes, the risk scoring model of HRD characteristics is developed, the prognosis value of the risk scoring model in triple-negative breast cancer patients is proved, and the risk scoring model is expected to be applied to a clinical intelligent decision-making system.

Description

technical field [0001] The invention relates to the technical field of biomedicine, in particular to a method for constructing a prognostic gene model of triple-negative breast cancer and its application. Background technique [0002] Triple-negative breast cancer (TNBC) is an aggressive subtype of breast cancer characterized by the expression of estrogen receptor (ER), progesterone receptor (PR), and human epidermal growth factor receptor-2 (HER-2) Loss of expression accounts for 10-20% of all types of breast cancer. Compared with non-TNBC patients, TNBC patients have the characteristics of young age, high histological grade, large tumor volume, high positive rate of lymph nodes, and easy metastasis to lung, brain and other parts. Secondly, TNBC cannot benefit from endocrine therapy and anti-HER-2 targeted therapy, and chemotherapy has become the main adjuvant therapy for TNBC patients. However, with the increase of drug resistance, effective chemotherapy for TNBC is limi...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B5/00G16B40/00
CPCG16B5/00G16B40/00
Inventor 张麟孔祥溢刘强方仪王靖
Owner 南京墨宁医疗科技有限公司
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