Method, kit and application for screening target regions detected by methylated PCR

Abstract

The present application discloses a method, kit and application for screening target regions detected by methylation PCR. The method of the present application includes (1) obtaining the methylation chip of the tumor to be analyzed and the corresponding transcriptome sequencing data from the database; (2) counting the methylation degree values ​​of the normal group and the cancer group, and screening for significant differences among different groups (3) Combined transcriptome sequencing expression profile analysis, statistical correlation coefficient, and screening of negatively correlated sites; (4) Correlation between the methylation candidate sites obtained in step (3) and the disclosed Literature association, screen to obtain sites with many literature support reports, large methylation differences between groups, and negatively correlated expression levels; use regression algorithm to obtain the best sensitivity and specificity set of sites, that is, the target area. The method of the present application comprehensively analyzes databases, transcriptome sequencing and literature, and combines multiple data filtering and regression algorithms to obtain sensitive and specific methylation PCR detection target regions.

Description

technical field [0001] The present application relates to the field of nucleic acid methylation PCR detection, in particular to a method, kit and application for screening target regions of methylation PCR detection. Background technique [0002] Abnormal DNA methylation and gene mutation are important reasons for the occurrence and development of tumors. The former may have occurred in the very early stage of tumors and is the "seed" factor that promotes tumor growth. In mammals, DNA methylation mainly occurs at C bases linked by CpG dinucleotides. CpG exists in two forms, one is scattered in DNA highly or moderately repetitive sequences, such as Alu; the other is highly aggregated to form CpG islands (abbreviated as CGI), which are located in the 5' end promoter region of the gene, and can also be Extends into the exon region of the gene. Studies have shown that the methylation of the promoter region of the genome is one of the important molecular changes that lead to ca...

AI Technical Summary

Problems solved by technology

The advantage of this method is that it uses public large sample data for machine learning algorithm and model construction, which can be accurate to the site, and the sensitivity and specificity in existing samples are ideal; the disadvantage is that the methylation 450k chip has about 480,000 bits point, it is prone to over-fitting or under-fitting phenomenon, and it is also easy to lead to a super large amount of calculation for algorithm and model construction, easy to overload; and it is easy to appear false positive biomarker

Images