Method and device for determining network characteristics of cell signal path, equipment and medium

A cell signal and network feature technology, applied in the field of information processing, can solve problems such as the inability to describe the network state of cell signal pathways

Active Publication Date: 2019-06-14
SHANGHAI BIOTECAN PHARMA +1
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

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Problems solved by technology

[0004] In the process of realizing the present invention, the inventor found that the prior art has the following defects: the prior art relies on gene expression data, and if there is only gene mutation data, the state of the cell signaling pathway network cannot be described

Method used

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  • Method and device for determining network characteristics of cell signal path, equipment and medium
  • Method and device for determining network characteristics of cell signal path, equipment and medium
  • Method and device for determining network characteristics of cell signal path, equipment and medium

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Embodiment 1

[0035] figure 1 It is a flowchart of a method for determining the network characteristics of cell signaling pathways provided by Embodiment 1 of the present invention. This embodiment is applicable to the situation where the network characteristics of a sample for cell signaling pathways are determined according to the gene mutation data of the samples. The method can be composed of The device for determining the characteristics of the cell signaling pathway network can be implemented by means of software and / or hardware, and can generally be integrated into a computer device. Correspondingly, such as figure 1 As shown, the method includes the following operations:

[0036]Step 101. Obtain a complete network graph of the specified cell signaling pathway. The complete network graph includes: multiple nodes and directed edges connecting two nodes with interaction relationships. The nodes include: genes or compounds.

[0037] The network diagram of the cell signaling pathway ma...

Embodiment 2

[0053] Figure 2a It is a flowchart of a method for determining the characteristics of a cell signaling pathway network provided by Embodiment 2 of the present invention. This embodiment can be combined with each optional solution in one or more of the above embodiments. In this embodiment, according to the mutated gene set corresponding to each sample, determining the intersection of unmutated genes matching all samples may include: The set of mutated genes corresponding to each sample, and all the genes included in the specified cell signaling pathway, determine the set of unmutated genes corresponding to each sample; the intersection of all sets of unmutated genes is calculated as the intersection of unmutated genes.

[0054] And, according to the complete network diagram and the mutated gene set of each sample, calculating the unmutated gene network diagram corresponding to each sample may include: in each node included in the complete network diagram, the mutated gene set...

Embodiment 3

[0079] image 3 It is a flowchart of a method for determining the characteristics of a cell signaling pathway network provided by Embodiment 3 of the present invention. This embodiment can be combined with each optional solution in one or more of the above embodiments. In this embodiment, the node sequence set of each sample is used to form a corpus, and the word vector model of each sample for the intersection of unmutated genes can be obtained through training. Including: obtaining the target node sequence set corresponding to the currently processed sample; taking the node identifier corresponding to each node in each node sequence as a word, and using each node sequence in the target node sequence set as a sentence composed of words , added to the target corpus corresponding to the target node sequence set; use each sentence composed of words included in the target corpus to train the preset standard word vector model, and obtain the currently processed sample for the inte...

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Abstract

The invention discloses a method and a device for determining network characteristics of a cell signal path, equipment and a medium. The method comprises the following steps: obtaining a complete network diagram of a specified cell signal path; determining an unmutated gene intersection matched with all the samples according to the corresponding mutated gene set, wherein the mutated gene set is associated with a specified cell signal path; according to the complete network diagram and the mutant gene set of each sample, calculating a non-mutant gene network diagram of each sample, generating anode sequence set of each non-mutant gene network diagram; forming a corpus by using the node sequence set, training to obtain a word vector model for the non-mutant gene intersection, and accordingto a processing result of each word vector model for the non-mutant gene intersection, obtaining cell signal path network characteristics of each sample for a specified cell signal path. The embodiment of the invention provides a brand-new new mode for describing the network characteristics of the cell signal path of the specified cell signal path through the gene mutation data of the sample.

Description

technical field [0001] Embodiments of the present invention relate to information processing technologies, and in particular to a method, device, equipment and medium for determining characteristics of a cell signaling pathway network. Background technique [0002] Cell signaling pathway is the main part of cell life activities, and it is necessary for cells to maintain normal physiological functions. Generally speaking, the expression values ​​of all genes in the cell signaling pathway network can be used as a class of features to describe the state of the cell, so that the differences between different samples can be compared. [0003] The prior art generally describes the cell signaling pathway network through differential gene expression. The basic method is to calculate gene expression data in a biologically meaningful way, and then search for genes with statistically significant differences through statistical analysis of gene expression data, that is, differentiall...

Claims

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Application Information

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IPC IPC(8): G06N3/00
Inventor 高军晖江荣峰张英霞龚建兵林斯袁卫兰王丽君林灵
Owner SHANGHAI BIOTECAN PHARMA
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