Gene sequencing system and sequencing method

A gene sequencing and sequencing technology, applied in the gene sequencing system and the field of sequencing, can solve the problems of heavy CPU load, time-consuming, and low processing performance, and achieve the effects of improving performance, shortening data storage and data, and realizing centralized management

Pending Publication Date: 2021-08-10
中科计算技术西部研究院
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

The existing gene sequencing process is usually controlled by the CPU, and the corresponding computer processing processes are all carried out in the CPU, resulting in a large CPU load, resulting in low processing performance, and a single gene sequencing process takes a long time

Method used

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  • Gene sequencing system and sequencing method
  • Gene sequencing system and sequencing method
  • Gene sequencing system and sequencing method

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0057] A gene sequencing system, as attached figure 1 As shown, it includes a central processing unit, an in-memory computing unit, and a storage computing unit that can run in parallel at the same time, and also includes a root complex.

[0058] The root complex is used to communicate with the central processing unit, in-memory computing unit, and storage computing unit, and the communication at this time includes the data transmission of genetic data and the interaction of management messages. Specifically, the root complex is connected to the central processing unit through the FSB, the root complex is connected to the memory computing unit through the DIMM, and the root complex is connected to the storage computing unit through the PCIe.

[0059] The central processing unit connects the root complex through the FSB, sends control and management messages to the memory computing unit and the storage computing unit, receives completion events, sends and receives genetic data,...

Embodiment 2

[0111] The differences between this embodiment and Embodiment 1 are:

[0112] A gene sequencing system, the memory computing unit and the storage computing unit both include a process control module, the process control module is used to receive process management information, arbitrate the process management information to obtain management commands, and distribute the management commands to preset management Message queue; it is also used to receive data information, call the management command in the corresponding management message queue according to the data information; execute the management command; when the memory computing unit and the storage computing unit are also used to execute the management command, call and execute the corresponding memory Sequencing operator or stored sequencing operator. specific:

[0113] as attached Image 6 As shown, the process control module includes a multi-queue sub-module, a management message arbitration sub-module and a flow rot...

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PUM

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Abstract

The invention relates to the technical field of gene sequencing data processing, in particular to a gene sequencing system and a sequencing method. The system comprises a central processing unit, an in-memory computing unit and a storage computing unit which can run in parallel at the same time, the central processing unit is used for calling and executing a central sequencing operator; the in-memory computing unit is used for calling and executing the in-storage sequencing operator, and the storage calculation unit is used for calling and executing the storage sequencing operator. According to the scheme, the processing steps in the gene sequencing process are unloaded to the central processing unit, the in-memory calculation unit and the storage calculation unit, so that the parallel processing of gene data is achieved, the parallel efficiency of different processing steps of gene sequencing is effectively improved, and therefore the performance of the gene sequencing processing process is improved.

Description

technical field [0001] The invention relates to the technical field of gene sequencing data processing, in particular to a gene sequencing system and a sequencing method. Background technique [0002] With the rapid development of bioinformatics, gene analysis has become a widely used technical method in scientific research and industry, and has been successfully applied in species identification and disease diagnosis. Among them, gene sequencing has become an increasingly important field in gene research. , in general, gene sequencing involves determining the sequence of nucleotides of nucleic acids, such as RNA or DNA fragments. By analyzing shorter genetic sequences, the resulting sequence information is used in various bioinformatics methods to logically fit multiple segments together to reliably determine sequences of broader lengths of genetic material. [0003] Gene sequencing technology is closely related to computer technology, and the entire computer processing fl...

Claims

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Application Information

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IPC IPC(8): G16B30/00
CPCG16B30/00
Inventor 谭光明康宁张春明段勃
Owner 中科计算技术西部研究院
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