Method for deducing gene regulation network by using single cell transcription and gene knockout data

A gene regulation network and gene knockout technology, applied in the field of gene regulation network research and analysis, can solve the problems of high space-time complexity, loss of steady-state gene expression level analysis, and reduce the accuracy of final experimental results, so as to reduce space-time complexity Accuracy, Improving Inference Accuracy, Effect of Improving Accuracy

Active Publication Date: 2019-11-29
TAIYUAN UNIV OF TECH
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Problems solved by technology

However, single-cell expression data are time-course data with high time resolution, which brings high time-space complexity to the algorithm for inferring gene reg

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  • Method for deducing gene regulation network by using single cell transcription and gene knockout data
  • Method for deducing gene regulation network by using single cell transcription and gene knockout data
  • Method for deducing gene regulation network by using single cell transcription and gene knockout data

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Embodiment Construction

[0058] The technical solutions of the present invention will be further described in more detail below in conjunction with specific embodiments. Apparently, the described embodiments are only some of the embodiments of the present invention, not all of them. Based on the embodiments of the present invention, all other embodiments obtained by persons of ordinary skill in the art without creative efforts shall fall within the protection scope of the present invention.

[0059] refer to Figure 1-5 , figure 1 It is a schematic flowchart of a method for inferring gene regulatory network using single-cell transcription and gene knockout data provided by the present invention. The steps of the method include:

[0060] S110: Using gene knockout technology to separately collect steady-state gene transcription expression data in multiple cells, and after stimulating each cell, collect transcription expression data of a single cell at multiple time points.

[0061] The belonging ste...

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Abstract

The invention discloses a method for deducing a gene regulation network by using single cellular transcription and gene knockout data, which comprises the following steps of: classifying genes by analyzing steady-state expression data before and after gene knockout to serve as priori knowledge so as to reduce the space-time complexity and improve the deduction accuracy; calculating an inter-gene distribution distance by utilizing single cell transcription data, establishing a multi-time-point multi-dimensional regression model for each gene according to the gene classification result, and calculating a relation factor in the model by adopting a mathematical method; performing corresponding algorithm analysis on the gene knockout data to remove part of false positive judgment, and making upfor the defect of analyzing dynamic data. According to the method, the problem of high computation complexity in analyzing the time sequence single-cell data is effectively solved, and the accuracy of deducing the gene regulation network is improved.

Description

technical field [0001] The invention relates to the field of gene regulatory network research and analysis, in particular to a method for inferring gene regulatory network using single-cell transcription and gene knockout data. Background technique [0002] As a tool for interpreting and analyzing genetic data, the gene regulatory network can reveal the regulatory relationship between genes, proteins and small molecules, understand the physiological activities and functions in biological cells, the interactions in pathways, and how to change the body. Studying gene regulatory networks from the perspective of single-cell transcription can reveal the detailed expression dynamics and functional relationships of cells, and clarify the functional role of cell-to-cell variation in different key physiological processes. However, single-cell expression data are time-course data with high time resolution, which brings high time-space complexity to the algorithm for inferring gene reg...

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Application Information

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IPC IPC(8): G16B5/20G16B40/00
CPCG16B5/20G16B40/00
Inventor 王会青董春林廉元元
Owner TAIYUAN UNIV OF TECH
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