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Gene sequence processing method and associated device thereof

A gene sequence and processing method technology, applied in the field of chemistry, can solve the problems of complex comparison process, slow down of gene comparison speed, time-consuming, etc.

Inactive Publication Date: 2018-11-30
ZHENGZHOU YUNHAI INFORMATION TECH CO LTD
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  • Abstract
  • Description
  • Claims
  • Application Information

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Problems solved by technology

The CPU adopts a strategy of comparing gene sequences one by one for gene sequence comparison. When comparing completely matched gene sequences, the process is simple and takes less time. complicated, more time consuming
[0004] However, for a complete matching gene sequence with a simple comparison process, if the CPU is used to perform a one-by-one comparison of gene sequences, the speed of gene comparison will be greatly reduced

Method used

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  • Gene sequence processing method and associated device thereof
  • Gene sequence processing method and associated device thereof
  • Gene sequence processing method and associated device thereof

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Embodiment Construction

[0087] The embodiment of the present application provides a gene sequence processing method, which is used to output the information of the first gene sequence according to the comparison result after performing gene comparison on the first gene sequence that completely matches the reference gene sequence in the FPGA.

[0088] In the embodiment of the present application, the field programmable gate array (English full name: field-programmable gatearray, English abbreviation: FPGA) and the central processing unit (English full name: central processing unit, English abbreviation: CPU) can be one of the network devices The device or unit may also be a device or unit in the terminal device, which is not specifically limited here.

[0089] This application can be applied to the genome analysis tool (full English name: the genome analysis toolkit, English abbreviation: GATK). The CPU and the FPG adopt a division of labor and cooperation method. First, the CPU determines the referenc...

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Abstract

The embodiment of the invention discloses a gene sequence processing method for making a CPU to output information of a first gene sequence according to a comparison result after gene comparison is conducted on the first gene sequence completely matched with a reference gene sequence in an FPGA. According the embodiment, the method comprises the steps that a field-programmable gate array (FPGA) obtains gene sequences sent by the CPU; the FPGA selects rules according to preset gene sequences, and the first gene sequence in the gene sequences is determined; the FPGA conducts matching on the first gene sequence and the reference gene sequence through a preset algorithm; if the first gene sequence and the reference gene sequence are completely matched, the FPGA sends the matching result of thefirst gene sequence and the reference gene sequence to the CPU, and the matching result is used for determining output processing conducted by the CPU on the information of the first gene sequence.

Description

technical field [0001] The present application relates to the field of chemistry, in particular to a gene sequence processing method and related equipment. Background technique [0002] In bioinformatics, the similarity comparison of sequence data, that is, gene comparison, is a basic information processing method. Gene comparison is to use a specific mathematical model or algorithm to find two or more sequences. The results of the alignment reflect the similarity relationship between the sequences and their biological characteristics. [0003] The current gene comparison technology is mainly realized by CPU using the BWA-MEM algorithm. The BWA-MEM algorithm scores the similarity of two gene sequences. The higher the score, the greater the similarity. The CPU adopts a strategy of comparing gene sequences one by one for gene sequence comparison. When comparing completely matched gene sequences, the process is simple and takes less time. Complicated and more time consuming. ...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/22
Inventor 崔星辰史宏志赵健尹云峰
Owner ZHENGZHOU YUNHAI INFORMATION TECH CO LTD
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