Transcriptome-based tumor metastasis gene detection system

A technology of tumor metastasis and gene detection, applied in the field of tumor metastasis gene detection system

Inactive Publication Date: 2016-08-17
WANKANGYUAN TIANJIN GENE TECH CO LTD
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Problems solved by technology

However, there is no specific method for mining tumor metastasis-related marker genes and characterizing the changes in the expressi

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  • Transcriptome-based tumor metastasis gene detection system
  • Transcriptome-based tumor metastasis gene detection system
  • Transcriptome-based tumor metastasis gene detection system

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Embodiment Construction

[0027] It should be noted that, in the case of no conflict, the embodiments of the present invention and the features in the embodiments can be combined with each other.

[0028] The present invention will be described in detail below with reference to the accompanying drawings and examples.

[0029] figure 1 Shown is the algorithm flow of this software system, and the framework of the present invention is as follows:

[0030] 1. Integration module of Read count matrix

[0031] The integration module has a DESeq2.r unit, which is used to merge the HTseq output read count matrix and perform gene expression change calculation. It mainly includes two subunits count_matrix and DEGseq.

[0032] The integration module also has a readcount.r unit which is used to take the read count file of a single sample as input, firstly combine the read counts in all samples for each gene to obtain the sample-gene read count matrix, and then filter the matrix, Finally, the data integration wa...

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Abstract

The invention provides a transcriptome-based tumor metastasis gene detection system. The transcriptome-based tumor metastasis gene detection system comprises an integration module, a recognition module, an analysis module and a marking module, wherein the integration module is used for integrating a Read counting matrix to obtain a statistical magnitude file of differential expression degree of each gene; the recognition module is used for recognizing the differential expression genes and comparing the differential degree between functions under tumor primary and metastasis conditions; the analysis module is used for analyzing a gene expression mode and classifying and analyzing the expression mode; the marking module is used for marking tumor metastasis genes; the integration module, the recognition module, the analysis module and the marking module are connected in sequence. The transcriptome-based tumor metastasis gene detection system is used for mining the tumor metastasis related genes from high-throughput data, and analyzing the abnormal changes of transcriptomes in primary and metastasis tumors and the dynamic changes of tumor metastasis marker gene expression modes in the metastasis process.

Description

technical field [0001] The invention belongs to the field of gene information data processing, in particular to a transcriptome-based tumor metastasis gene detection system. Background technique [0002] 90% of cancer-related deaths are due to tumor metastasis. This emphasizes the great harm of tumor metastasis to patients, and also illustrates the importance of reducing cancer mortality by predicting the risk of tumor metastasis and preventing tumor metastasis early. However, our understanding of the molecular mechanism of cancer metastasis is still very little. Microarray-based studies have shown that the clinical phenotype of patients can be predicted in the early diagnosis of tumors by analyzing the expression of marker genes (gene expression signatures). Similarly, the expression of marker genes can be used to help analyze the metastasis risk of patients. These marker genes can be used as markers of transfer (metastatic signature). However, the mechanism of tumor me...

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Application Information

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IPC IPC(8): C12Q1/68
CPCC12Q1/6886C12Q2600/158
Inventor 薛成海马熹俞丽佳
Owner WANKANGYUAN TIANJIN GENE TECH CO LTD
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