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Processing method and device of circulating-tumor-DNA (ctDNA) repeats

A technology of DNA repetition and processing method, which is applied in the field of genetic engineering and can solve the problems of low accuracy

Active Publication Date: 2018-07-24
GENE CRAB BIOTECH CO
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0007] Embodiments of the present invention provide a method and device for processing repetitive sequences of circulating tumor DNA, so as to at least solve the technical problem of low accuracy in the processing method of sequencing data in the prior art to delete or mark repetitive sequences in sample sequencing

Method used

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  • Processing method and device of circulating-tumor-DNA (ctDNA) repeats
  • Processing method and device of circulating-tumor-DNA (ctDNA) repeats
  • Processing method and device of circulating-tumor-DNA (ctDNA) repeats

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Embodiment 1

[0049] According to an embodiment of the present invention, an embodiment of a method for processing circulating tumor DNA repeat sequences is provided. It should be noted that the steps shown in the flowcharts of the accompanying drawings can be implemented in a computer system such as a set of computer-executable instructions and, although a logical order is shown in the flowcharts, in some cases the steps shown or described may be performed in an order different from that shown or described herein.

[0050] figure 1 It is a flowchart of a method for processing circulating tumor DNA repeat sequences according to an embodiment of the present invention, such as figure 1 As shown, the method includes the following steps:

[0051] Step S100, obtaining sequencing data and reference genome sequence of the circulating tumor DNA to be detected, wherein the sequencing data is the data obtained by high-throughput sequencing of the circulating tumor DNA to be detected, and the sequenc...

Embodiment 2

[0209] According to an embodiment of the present invention, an embodiment of a device for processing circulating tumor DNA repeat sequences is provided.

[0210] Figure 6 is a schematic diagram of a circulating tumor DNA repeat sequence processing device according to an embodiment of the present invention, such as Figure 6 As shown, the device includes:

[0211] The first acquisition module 60 is used to acquire the sequencing data and reference genome sequence of the circulating tumor DNA to be detected, wherein the sequencing data is the data obtained by high-throughput sequencing of the circulating tumor DNA to be detected, and the sequencing data includes: multiple pairs of double-end sequences .

[0212] Specifically, the above-mentioned circulating tumor DNA to be detected can be the gene sequence extracted from the patient's blood, lymph fluid, interstitial fluid, cerebrospinal fluid and other body fluids. In the embodiment of the present invention, ctDNA extracted ...

Embodiment 3

[0224] According to an embodiment of the present invention, an embodiment of a storage medium is provided. The storage medium includes a stored program, wherein when the program is running, the device where the storage medium is located is controlled to execute the above-mentioned method for processing circulating tumor DNA repeat sequences.

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Abstract

The invention discloses a processing method and device of circulating-tumor-DNA (ctDNA) repeats. The method comprises: acquiring sequencing data of to-be-detected circulating tumor DNA and a referencegenome sequence, wherein the sequencing data are data obtained by high-throughput sequencing (NGS) on the to-be-detected circulating tumor DNA; carrying out mapping on the sequencing data and the reference genome sequence to obtain a first mapping result, wherein the first mapping result at least comprises genome positions, base sequences and corresponding base quality value sequences of multiplepairs of paired ends reads (PE Reads or Mate Paires); obtaining at least one sequence set on the basis of the first mapping result; carrying out network clustering on at least one pair of the pairedends reads in each sequence set to obtain at least one first network; and acquiring paired ends reads of a largest number in each first network to obtain an independent sequence corresponding to eachfirst network. The method solves the technical problem that accuracy of carrying out repeated-sequence deletion or labeling on sample sequencing by processing methods of sequencing data in the prior art is low.

Description

technical field [0001] The invention relates to the field of genetic engineering, in particular to a method and device for processing circulating tumor DNA repeat sequences. Background technique [0002] During the process of division and proliferation, tumor cells will undergo apoptosis, death, and necrosis, and will also actively release DNA fragments carrying tumor mutations into body fluids, that is, circulating tumor DNA (circulating tumor DNA, ctDNA for short), which mostly exists in In body fluids such as blood, synovial fluid and cerebrospinal fluid, especially in plasma free DNA (cell-free DNA, cfDNA). Through the sequencing of ctDNA, the genomic region where the base sequence changes (mutation) occurs on the DNA molecule of the tumor cell is detected, which can effectively reflect the patient's response to the treatment; after the drug response is detected, the tumor may become resistant to the drug treatment, ctDNA detection can also track the generation of drug-...

Claims

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Application Information

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IPC IPC(8): G06F19/22
CPCG16B30/00
Inventor 郭昊于佳宁韩天澄宋雪林小静
Owner GENE CRAB BIOTECH CO
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