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Tumor-related IncRNA and tumor-related IncRNA function predication

A tumor-related and functional technology, applied in the field of relationship between lncRNA and tumor, can solve problems such as long time, large similarity matrix, and efficiency impact, and achieve the effect of simple method, simple process, and convenient operation

Inactive Publication Date: 2017-01-04
JILIN UNIV
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Problems solved by technology

Among them, when solving the co-expression similarity matrix, it takes a long time, and the calculated similarity matrix is ​​large, which affects the efficiency of the experiment.

Method used

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  • Tumor-related IncRNA and tumor-related IncRNA function predication
  • Tumor-related IncRNA and tumor-related IncRNA function predication
  • Tumor-related IncRNA and tumor-related IncRNA function predication

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Embodiment Construction

[0062] The flow of the present invention will be described below in conjunction with the accompanying drawings, and the examples given are only used to explain the present invention, and are not intended to limit the scope of the present invention.

[0063] The present invention aims to find tumor-related lncRNAs and predict their functions, including: first stage, differential expression analysis of treated cancer slices, and screening by two indicators of fold change and p-value. In the second stage, calculate the similarity matrix between the differentially expressed lncRNA and all genes in the data and draw a co-expression network diagram. In the third stage, it is judged whether the coding genes that are both differentially expressed and co-expressed with differentially expressed lncRNAs can find their counterparts in saliva, blood and urine. In the fourth stage, put the coding genes obtained in the third stage on the DAVID website to analyze their GOBP and pathway to fur...

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Abstract

The invention relates to tumor-related IncRNA and tumor-related IncRNA function predication. By taking differential expression of IncRNA in tumors as diagnosis references, a process for finding a relation between IncRNA and tumors includes: step one, downloading data from GEO database, processing the data to obtain expression data of part of IncRNA and exons; step two, subjecting the processed expression data to differential expression analysis; step three, analyzing co-expression and differential coding genes and IncRNA for IncRNA in differential expression; step four, subjecting the coding genes to probe platform annotation; step five, further screening the IncRNA in differential expression to select out most obviously differential IncRNA; step six, performing enrichment analysis to obtain a GOBP process and pathyway, and speculating IncRNA functions through coding gene related biological processes; step seven, analyzing whether common coding genes obtained at the step six can enter blood, saliva and urine or not, analyzing genes which are allowed to enter, and taking the genes and IncRNA as potential predication marks of cancers.

Description

technical field [0001] The present invention relates to tumors and genes, more specifically, the relationship between lncRNAs and tumors. Background technique [0002] With the development of biological technology, the diagnosis and treatment of cancer is a difficult problem that people have been working hard to overcome. A lot has been done on the expression data of gene transcripts in cancer patients, but the significance of these data has not been found out, so it is very important to scientifically analyze these data, and lncRNA is a very important type of transcription product of genes , analyzing its differential expression between patients and non-patients will provide important reference information for cancer treatment and diagnosis. At first it was thought that coding genes caused cancer, but later it was found that although lncRNA is not directly involved in coding proteins, it can regulate the expression of other genes and is closely related to cancer. We can a...

Claims

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Application Information

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IPC IPC(8): G06F19/18G06F19/20G06F19/24
CPCG16B25/00G16B20/00G16B40/00
Inventor 李瑛何叶梁艳春张禹苏静韩斯禹
Owner JILIN UNIV
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