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Gene composition for detecting specific intestinal flora proportion of esophageal cancer patient and application of gene composition

A technology for intestinal flora and esophageal cancer, applied in the field of molecular diagnosis, can solve the problems of expensive detection and achieve good sensitivity and specificity, high accuracy, and economical results

Pending Publication Date: 2021-12-14
ZHONGSHAN HOSPITAL FUDAN UNIV
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  • Application Information

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Problems solved by technology

[0005] However, the current method of measuring the genes of patients with esophageal cancer to infer the proportion of specific intestinal flora (Bacteroidetes, Firmicutes, Actinobacteria) is not a routine clinical item, and it is expensive to detect alone, and there may still be a detection method with both accuracy and application value Can be applied to the formulation of individualized treatment plans for patients with esophageal cancer

Method used

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  • Gene composition for detecting specific intestinal flora proportion of esophageal cancer patient and application of gene composition
  • Gene composition for detecting specific intestinal flora proportion of esophageal cancer patient and application of gene composition
  • Gene composition for detecting specific intestinal flora proportion of esophageal cancer patient and application of gene composition

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Embodiment 1

[0019] Construction of a scoring model for predicting the proportion of specific intestinal flora (Bacteroidetes, Firmicutes, Actinobacteria) in patients with esophageal cancer:

[0020] In the first step, the data of 44 esophageal cancer samples were obtained from the TCGA and TCMA databases, and the samples were divided into high proportion groups (n=21) according to the proportion of specific intestinal flora (Bacteroidetes, Firmicutes, Actinobacteria) and the low proportion group (n=22), by performing LASSO regression analysis on the expression data of all genes in the full RNA expression profile of 44 samples in [log2(FPKM+1) form], such as figure 1 As mentioned above, the genes significantly related to the proportion of specific intestinal flora (Bacteroidetes, Firmicutes, Actinobacteria) were obtained, and finally 10 genes were selected: SNX3, AKIRIN2, TMEM87B, STEAP3, PPME1, LGALS7B, ARFRP1, STX11, RP11 -295P9.3, RP11-434D12.1

[0021] The second step is to construct ...

Embodiment 2

[0025] Validation of the scoring model:

[0026] RNA sequencing was performed on 25 esophageal cancer samples collected from the Thoracic Surgery Department of Zhongshan Hospital affiliated to Fudan University, and the proportion of any one or more of the intestinal flora Bacteroidetes, Firmicutes and Actinobacteria was detected, and the RNA expression data were brought into the prediction The model obtains the Score score of each sample. Those whose scores are higher than the cutoff value of 0.008 are the high proportion group, and those whose scores are lower than the cutoff value of 0.008 are the low proportion group. The results are shown in Table 1.

[0027] Table 1 Validation results of the scoring model

[0028]

[0029] The experimental results show that the prediction model has a sensitivity of 0.812 and a specificity of 0.88.

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Abstract

The invention discloses a gene composition for detecting the specific intestinal flora proportion of an esophageal cancer patient and an application of the gene composition. The gene composition disclosed by the invention comprises a gene SNX3, a gene AKIRIN2, a gene TMEM87B, a gene STEAP3, a gene PPME1, a gene LGALS7B, a gene ARFRP1, a gene STX11, a gene RP11-295P9.3 and a gene RP11-434D12.1. According to the composition, LASSO regression (lasso regression) and dichotomy Logistic regression are used for screening genes related to the proportion of the intestinal flora, a Score is constructed, a cutoff value of a corresponding score in the esophagus cancer is obtained through ROC curve analysis, and the composition can be used for speculating the proportion of the related intestinal flora of the esophagus cancer patient. A scoring model constructed based on the gene composition is verified to have the advantages of high accuracy and good specificity, and has a very good application prospect.

Description

technical field [0001] The invention relates to a gene composition for detecting the proportion of specific intestinal flora in patients with esophageal cancer and its application, belonging to the technical field of molecular diagnosis. Background technique [0002] Esophageal cancer is a very common malignant tumor, and worldwide, the mortality rate of esophageal cancer ranks sixth (accounting for 5.3% of the total number of cancer deaths). The main subtype of esophageal cancer is esophageal squamous cell carcinoma, and about 90% of esophageal cancers are esophageal squamous cell carcinoma. The diagnosis and prognosis of esophageal cancer still need to be improved. How to accurately assess the molecular characteristics of esophageal cancer is of great significance for precise treatment of patients, prognosis assessment and reduction of social burden. [0003] The occurrence of esophageal cancer is significantly correlated with nutritional status and eating habits, and th...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): C12Q1/689G16B40/00G16H50/70G16H50/20C12R1/01
CPCC12Q1/689G16B40/00G16H50/70G16H50/20C12Q2600/158Y02A50/30
Inventor 杨蕙沁胥丰恺金星程涛张欢詹成古杰葛棣
Owner ZHONGSHAN HOSPITAL FUDAN UNIV
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