Gene expression quantitative method and device

Abstract

The invention discloses a gene expression quantitative method and device. The gene expression quantitative method includes the steps that read section sequences containing nucleotide sequence information are obtained; the read section sequences are compared with all reference genes to obtain the read section sequences with successful comparison; the read section sequences with the successful comparison are filtered, the read section sequences with the soft shear ratio larger than a first preset value, the sequence length smaller than a second preset value and the comparison score smaller than a third preset value are rejected, and the ratio which the number of basic groups with unsuccessful comparison accounts for the total number of basic groups of each read section sequence serves as the soft shear ratio; the comparison score is a numerical value determined according to the matching degree of each read section sequence and the reference genes and the length of each read section sequence; for the filtered read section sequences, target gene expression is quantified by using RPKM. The read section sequences are compared with the reference genes instead of existing reference genomes, the comparison process can be simplified, and comparison efficiency can be improved.

Description

technical field [0001] The invention relates to the technical fields of genomics and bioinformatics, in particular to a quantitative method and device for gene expression. Background technique [0002] Transcriptome sequencing technology (RNA-seq, RNA sequencing) is to measure the sequences of small RNA (Ribonucleic Acid, ribonucleic acid), mRNA and non-coding RNA, or some of them with high-throughput sequencing technology. There are currently several RNA-seq sequencing platforms, including Hiseq, Roche FLX, Illumina Solexa, ABI solid, etc. The sequencing principles of different sequencing platforms are different, but the sequencing steps basically include library preparation, polymerase chain reaction (PCR, Polymerase Chain Reaction) amplification, etc. Through RNA-seq, researchers can obtain the status of gene expression in organisms, and study the differences in gene expression levels of different individuals, different periods, and different forms of tissues. [0003] ...

AI Technical Summary

Problems solved by technology

[0003] Chinese patent application (application number: 201110283718.2, name: a method for quantitative analysis of gene expression) discloses a method for quantitative analysis of gene expression based on the Illumina platform, which can overcome the impact of digital gene expression (DGE, Digital Gene Expression) technology on CATG Disadvantages of strong dependency on point and reference gene integrity

However, this method takes a long time for sequencing and analysis, and labor efficiency needs to be improved

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