Cancer-related MicroRNA identification method based on miRNA-gene regulation module

A cancer-related and identification method technology, applied in the field of data mining, can solve the problem of not fully considering the miRNA regulatory relationship, and achieve the effect of improving efficiency and accuracy, and reducing the scope of calculation

Pending Publication Date: 2019-05-03
HUNAN UNIV
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Problems solved by technology

[0004] In summary, the existing methods do not fully consider the complex regulatory relationship between miRNAs and genes in the process of cancer, and there are very few studies on the identification of cancer-related miRNAs based on the complex regulatory relationship between miRNAs and genes.

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  • Cancer-related MicroRNA identification method based on miRNA-gene regulation module
  • Cancer-related MicroRNA identification method based on miRNA-gene regulation module
  • Cancer-related MicroRNA identification method based on miRNA-gene regulation module

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Embodiment Construction

[0032] In order to make the object, technical solution and advantages of the present invention clearer, the present invention will be further described in detail in combination with experiments below. It should be understood that the specific embodiments described here are only used to explain the present invention, not to limit the present invention.

[0033] The hardware environment is mainly a PC host. Among them, the CPU of the PC host is Intel(R) Core(TM) i7-6700, 3.40GHz, the memory is 32GB RAM, and the 64-bit operating system. The software uses Windows 7 as the platform and is implemented in R language in the RStudio environment. The RStudio version is 1.1.142 and the R language version is 3.5.0.

[0034] The data used are three relatively complete cancer data sets downloaded from TCGA, breast cancer (Breast Invasive Carcinoma, BRCA), prostate cancer (Prostate Adenocarcinoma, PRAD), lung adenocarcinoma (LungAdenocarcinoma, LUAD), these three cancer-related There are r...

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Abstract

The invention relates to data mining in bioinformatics, and particularly to a method for identifying the cancer-related miRNA through a miRNA-gene regulation module. The method comprises the steps ofperforming difference comparison of gene expression data; processing the gene expression data and miRNA expression data; constructing the miRNA-gene interaction matrix; calculating a miRNA-gene correlation coefficient, obtaining a miRNA-gene correlation matrix, performing fuzzy clustering on the miRNA; constructing a combined miRNA-gene interaction matrix and a miRNA-gene correlation matrix, calculating absolute average correlation degree of the gene with each miRNA, adding the gene into the miRNA according to absolute average correlation degree for constructing the miRNA-gene regulating module; calculating the correlation degree of the miRNA in each module, and ordering according to the correlation degree. The main process is presented in a graph 1. The method can be used for acquiring the cancer-related miRNA for searching the function and the mechanism in a cancer development and generating process, screening the miRNA biological mark in cancer early-period diagnosis, and acquiringtargets in targeted treatment of the cancer.

Description

technical field [0001] The invention relates to data mining in bioinformatics, in particular to mining of cancer bioinformatics data. In particular, it relates to methods for identifying cancer-associated miRNAs via miRNA-gene regulatory modules. Background technique [0002] MicroRNA (miRNA) is a kind of non-coding small RNA with a length of about 20-24 nucleotides, which is involved in various biological processes such as cell proliferation, development and apoptosis. They regulate gene expression through cleavage or translational repression by recognizing complementary target sites in the untranslated region of mRNA. More and more evidence shows that miRNAs play an important role in the occurrence and development of breast cancer, ovarian cancer, lung cancer and other cancers. Therefore, identification of cancer-associated miRNAs can be useful in cancer diagnosis, prognosis, and drug target discovery. Although experimental methods such as microarray analysis and QRT-PC...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16H50/70G16B25/10
Inventor 雷佳伟王树林
Owner HUNAN UNIV
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