Method for determining gene expression regulation mechanism based on unicellular transcriptome data

Abstract

The invention provides a method for determining a gene expression regulation mechanism based on unicellular transcriptome data. The method comprises the following steps: determining a specific high-expression gene of a central cell and a specific high-expression gene of a neighbor cell according to single cell transcriptome data; determining a first sub-network between the central cell and the neighbor cell according to the specific high-expression genes of the central cell and the neighbor cell and the pairing information between the ligand and the receptor; determining a second sub-network of the central cell according to the specific high-expression gene of the central cell and the interaction information between the transcription factor and the target gene; determining a third sub-network of the central cell according to the specific high-expression gene of the central cell and the interaction information between the receptor and the transcription factor; and according to the firstsub-network, the second sub-network and the third sub-network, determining an intercellular multilayer signal network of the central cell and the neighbor cells so as to reveal regulation and controlof gene expression of the central cell by the neighbor cells.

Description

technical field [0001] The present application relates to the field of bioinformatics, in particular, to a method for determining a gene expression regulation mechanism based on single-cell transcriptome data. Background technique [0002] Gene expression is the foundation and fundamental of complex life phenomena, and it is a multi-level, multi-factor and temporal-spatial synergistic process. Mastering the regulation of gene expression helps to explain the growth and development of life, the occurrence and development of diseases and other mechanisms. [0003] The change of gene expression level affects the function and fate of cells. Therefore, the study of the regulation mechanism of gene expression requires the construction of a corresponding cell signaling network. The signal network involved in the regulation of gene expression includes both intercellular signal transmission, intracellular signal transduction and gene activation. Therefore, a systematic, multi-layered...

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Problems solved by technology

[0006]1) The regulation of gene expression is regulated by a very complex signaling network, which is composed of functional molecules such as ligand-receptor-transcription factor-target gene, and the signaling pathways are intertwined. A single or few linear pathways are not sufficient to elucidate mechanisms of gene expression regulation

[0007]2) Neglecting the influence of cellular microenvironment on the regulation of gene expression level

[0008]3) Traditional high-throughput sequencing technology ignores cell-specific differences

However, traditional transcriptome sequencing often reflects the average expression level of genes in a certain region as a whole, and individual cell-specific functional molecules with special regulatory effects may be mistaken for non-functional molecules because their expression is not as good as that of other widely expressed functional molecules. Molecules of Regulatory Significance

Therefore, it is easy to ignore the subtle and specific biological effects caused by cell type differences using traditional transcriptome sequencing

[0009]4) Traditional experimental research is inefficient

Although the accuracy of the experimental research is high and the results are relatively credible, due to the high resource consumption of the experiment and the complexity of the cell signaling network, it is only possible to conduct research on specific signaling pathways

Therefore, traditional experimental research cannot comprehensively and systematically elucidate the regulatory mechanism of gene expression.

[0010]Therefore, it is difficult to reveal the regulation mechanism of gene expression comprehensively and systematically with the current methods for studying the regulation mechanism of gene expression

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