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Fusion method for gene expression and methylation data

A gene expression and fusion method technology, applied in the field of biological multi-omics data fusion, can solve the problem of unreliable analysis results and achieve high accuracy.

Inactive Publication Date: 2018-04-27
UNIV OF ELECTRONICS SCI & TECH OF CHINA
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  • Abstract
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Problems solved by technology

Since the 450K microarray data only cover 2% of the CpG sites in the human genome, the fusion analysis results are likely to be unreliable

Method used

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  • Fusion method for gene expression and methylation data
  • Fusion method for gene expression and methylation data
  • Fusion method for gene expression and methylation data

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Experimental program
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Embodiment

[0048] figure 1 It is a flow chart of the fusion method for gene expression and methylation data of the present invention.

[0049] In this embodiment, as figure 1 As shown, the fusion method for gene expression and methylation data of the present invention includes the following steps:

[0050] S1, data acquisition

[0051] Obtain gene expression data of various cancers and DNA methylation data measured by 450K chips from the cancer genome map database;

[0052] In this example, ESCA (esophagysquamous cell carcinoma) is obtained from the cancer genome public database TCGA, as an example, and the corresponding gene expression data and the DNA methylation data of the 450K chip are taken; among them, the esophagy The gene expression data of cancer ESCA has 202 samples, 26893 gene features, the DNA methylation data of 450K chip has 196 samples, 376873 loci features; and the gene expression data and DNA methylation data of esophageal cancer ESCA As omics data.

[0053] S2, processing of...

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Abstract

The invention discloses a fusion method for gene expression and methylation data. The fusion method includes the steps of firstly obtaining the gene expression data of a certain cancer and the DNA methylation data measured by a 450K chip from a database of cancer genome maps, then respectively performing pretreatment on the gene expression data and the DNA methylation data to obtain their respective differential gene, then cross-matching the two differential genes to obtain overlapping genes, and finally analyzing the pathways of the overlapping genes by a David online tool, and finding out cancer- and immune-related pathways in the significantly enriched pathways for the expansion of the DNA methylation data to obtain a greater number of genome-wide CpG sites.

Description

Technical field [0001] The invention belongs to the technical field of fusion of biological multi-omics data, and more specifically, relates to a fusion method for gene expression and methylation data. Background technique [0002] Information mining methods based on single omics data are difficult to systematically and comprehensively understand the emergence and development process of diseases. Combining multiple omics data to study the occurrence and development of cancer can avoid the one-sidedness of single omics data. It is not only effective for diseases. Mechanism research and identification of disease-causing targets play a driving role, and also provide new ideas for basic disease science and precision medicine research. [0003] At present, the fusion analysis of gene expression data and DNA methylation data is mainly based on the data of 450K methylation chip. Since the 450K chip data only covers 2% of the CpG sites in the human genome, the fusion analysis results are ...

Claims

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Application Information

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IPC IPC(8): G06F19/18G06F19/24G06F19/28
CPCG16B20/00G16B40/00G16B50/00
Inventor 凡时财鲁文斌邹见效徐红兵
Owner UNIV OF ELECTRONICS SCI & TECH OF CHINA
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