12-gene expression classifier for predicting colonic adenocarcinoma prognosis, and establishment method for classifier

A technology of gene expression and colon adenocarcinoma, applied in the field of gene expression classifier and its construction to predict the prognosis of colon adenocarcinoma patients, can solve the problem of diluting tumor individual heterogeneity

Inactive Publication Date: 2017-12-12
南京明捷生物医药检测有限公司
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Problems solved by technology

Therefore, normalization of gene expression using PGK1 and GPX1 likely dilutes heterogeneity among individual tumors

Method used

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  • 12-gene expression classifier for predicting colonic adenocarcinoma prognosis, and establishment method for classifier
  • 12-gene expression classifier for predicting colonic adenocarcinoma prognosis, and establishment method for classifier
  • 12-gene expression classifier for predicting colonic adenocarcinoma prognosis, and establishment method for classifier

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Embodiment Construction

[0060] The present invention will be elucidated with reference to the following examples, but the present invention will not be limited to the following examples.

[0061] 1 Research materials and methods

[0062] 1.1 TCGA (The Cancer Genome Altas) and GEO (Gene

[0063] Expression Omnibus) dataset download

[0064] Download RNA-seq transcriptome data for multiple cancers from the TCGA RNA-seq database (Gene https: / / cancergenome.nih.gov / ) Machine Clinical Information. Colon cancer gene expression microarray and its clinical information were downloaded from the GEO database (https: / / www.ncbi.nlm.nih.gov / geo / ).

[0065] 1.2 Construction of gene expression classifier

[0066] The construction method of the gene expression classifier is divided into two steps of training and verification.

[0067] 1.2.1 Training steps

[0068] 1.2.1.1 The first stage

[0069] Grouping: TCGA's colon adenocarcinoma (COAD) gene expression data and clinical information were used for the first st...

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Abstract

The invention discloses a gene expression classifier for predicting colonic adenocarcinoma prognosis, and an establishment method for the classifier. The establishment method comprises a data training stage and a verification stage. The training stage comprises a first stage and a second stage; in the first stage, a gene expression classifier prototype capable of predicting the colonic adenocarcinoma prognosis is established by using a supervised machine learning method; and in the second stage, the gene expression classifier for predicting the colonic adenocarcinoma prognosis is obtained by further using the machine learning method. The gene expression classifier can predict not only prognosis of patients suffering from colonic adenocarcinoma but also prognosis of patients suffering from kidney cancers, lung squamous cancers, eye ground and skin melanin tumors, brain cancers and pancreatic cancers, thereby providing accurate judgment criteria for postoperative adjuvant treatment of the patients suffering from the cancers.

Description

technical field [0001] The invention relates to a gene expression classifier and its construction method, more specifically to a gene expression classifier for predicting the prognosis of colon adenocarcinoma patients and its construction method. Background technique [0002] Colorectal cancer is one of the most common types of cancer in men and women, almost 10% of all cancer patients are colorectal cancer patients, and the death of colorectal cancer patients ranks third among all cancer types (Stewart BW and Wild CP, 2014). Colorectal cancer can be divided into three molecular subtypes: chromosomal instability, microsatellite instability, and CpG island methylation. Responses vary (DeSousa et al., 2013). Currently in clinical practice, TNM staging (Tumor-Node-Metastasis) is the standard diagnostic model for colorectal cancer. However, due to the high degree of heterogeneity of colorectal cancer, patients with consistent clinical stage often have large differences in rec...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/20G06F19/12
CPCG16B5/00G16B25/00
Inventor 王俊陆晓顾凯郝文山史其萍
Owner 南京明捷生物医药检测有限公司
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