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RNA-seq differential expression gene determination method and application

A technology of differentially expressed genes and determination methods, applied in the field of single-cell organisms, can solve the problems of selecting differentially expressed genes, lack of uniform standards for differentially expressed genes, etc., and achieve the effect of reducing errors and human intervention errors

Pending Publication Date: 2022-02-08
浙江百麦生物科技有限公司
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Problems solved by technology

At present, there is no method to select the optimal solution of differentially expressed genes according to the characteristics of different data, and there is a lack of uniform standards for judging differentially expressed genes

Method used

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  • RNA-seq differential expression gene determination method and application

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Embodiment Construction

[0031] The following describes several preferred embodiments of the present invention with reference to the accompanying drawings, so as to make the technical content clearer and easier to understand. The present invention can be embodied in many different forms of embodiments, and the protection scope of the present invention is not limited to the embodiments mentioned herein.

[0032] Such as figure 1 As shown in the algorithm operation flow chart, the process of the dynamic modeling algorithm for single-cell transcriptome data is described in detail, as follows:

[0033] Step 1. Random noise interference gene removal: Merge cells from two classes, X and Y, together. Based on the average expression level μ and variance σ of each gene 2 Relationship: σ 2 / μ 2 = a0+al / μ, calculate the predicted value σ of the variance of each gene 1 2 . If the true variance value σ of the gene 2 1 2 , the gene is considered to be a noise pollution gene.

[0034] Step 2. Use t-test to...

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Abstract

The invention discloses a RNA-seq differential expression gene determination method and application, and relates to the technical field of unicellular biology. The determination method comprises the steps that random noise interference genes are removed, differential detection is conducted on each gene through t-test to find out non-differential expression genes to serve as negative control, modeling is conducted on classification correlation components through PLS, a minimum mean square error method is used to remove classification irrelevant components, an outlier is found out based on the processed data and a non-differential expression gene, and a differential expression gene is deteremined. The determination method is applied to comparison of differences of cell expression profile characteristics under different conditions. According to the invention, the selection of the judgment standard depends on a data-driven adaptive algorithm, and the judgment standard can be automatically adjusted according to different data without human intervention, so that the human intervention error is reduced.

Description

technical field [0001] The invention relates to the technical field of single-cell biology, in particular to a method and application for determining differentially expressed genes by RNA-seq. Background technique [0002] Single-cell RNA-seq technology can comprehensively describe the expression profile characteristics of a single cell at the sampling time. Since current single-cell technology can simultaneously acquire information from multiple cells, it provides a powerful tool for better understanding biological and clinical problems. In many cases, people will obtain samples from multiple conditions, such as disease and normal; and then speculate on the impact of conditional changes on cells by comparing the differences in the expression profile characteristics of cells under different conditions. Among them, the determination of differentially expressed genes is very important. [0003] At present, there are two ideas to help people find differentially expressed gene...

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B25/10
CPCG16B25/10
Inventor 王蕊
Owner 浙江百麦生物科技有限公司
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