Computing system and acceleration platform for reconfigurable gene alignment

A computing system and gene comparison technology, applied in the field of bioinformatics, can solve the problem of low computational efficiency of gene comparison and achieve low power consumption

Inactive Publication Date: 2017-12-08
JIANGSU VARIABLE SUPERCOMP TECH
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0005] The technical problem to be solved by the present invention is to overcome the defect of low gene comparison calculation efficiency in the prior art

Method used

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  • Computing system and acceleration platform for reconfigurable gene alignment
  • Computing system and acceleration platform for reconfigurable gene alignment
  • Computing system and acceleration platform for reconfigurable gene alignment

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Experimental program
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Embodiment 1

[0044] An embodiment of the present invention provides a reconfigurable gene comparison computing system for processing gene comparison subtasks, such as figure 1 As shown, the computing system includes at least one computing module 41a, a first interconnection module 42a and a management module 43a.

[0045] The computing module 41a in this embodiment is used to receive the gene comparison subtask and process the gene comparison subtask. Among them, the gene comparison subtask is obtained by segmenting a gene comparison task.

[0046] As an optional implementation of this embodiment, such as figure 2 As shown, the computing module 41a includes at least one computing node 411 . Wherein, the computing nodes 411 in each computing module 41 a are interconnected through the second interconnection module 412 . The computing node 411 is used to process the subtask of gene comparison; the second interconnection module 412 is used to control all computing nodes 411 to perform para...

Embodiment 2

[0055] An embodiment of the present invention provides an acceleration platform for reconfigurable gene comparison, which is used to process gene comparison tasks, such as Figure 4 As shown, the acceleration platform includes at least one reconfigurable gene comparison computing system 40 in Embodiment 1, a service exchange device 20 , a management exchange device 30 and a server 10 .

[0056] Each computing system 40 in this embodiment has the same internal structure, including at least one computing module 41 , a first interconnection module 42 and a management module 43 . For the specific structural details of the reconfigurable gene comparison computing system not described in detail in this embodiment, please refer to Embodiment 1, and details will not be repeated here.

[0057] The service exchange device 20 in this embodiment is used for distributing the gene comparison subtasks to each computing system 10 and recovering and summarizing the processing results of the ge...

Embodiment 3

[0063] The embodiment of the present invention provides a workflow of the accelerated platform for reconfigurable gene comparison in Implementation 2 of the present invention:

[0064] The gene comparison task or the gene comparison sequence is input to the server 10 , and the server 10 divides the gene comparison task or the gene comparison sequence and transmits them to the service exchange device 20 . In this embodiment, the gene comparison task or the gene comparison sequence can be input to the management server 10 through the database. For the convenience of description, in the following of this embodiment, the task of gene comparison is used.

[0065]The service exchange device 20 is connected to each computing system 10, and is responsible for the management of global tasks; responsible for exchanging 10 gigabytes of data between computing systems 10;

[0066] The service exchange device 20 is also responsible for maintaining the load balance of each computing system ...

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Abstract

The invention relates to the field of bioinformatics, and aims to provide a computing system and acceleration platform for reconfigurable gene alignment. The computing system for the reconfigurable genetic alignment includes at least one computation module, a first interconnection module and a management module, wherein the computation modules are used for acquiring genetic alignment sub-tasks and processing the genetic alignment sub-tasks, and the genetic alignment sub-tasks are acquired by dividing a genetic alignment task; the first interconnection module is used for retrieving the results of the genetic alignment sub-tasks which are processed by all the computation modules when all the computation modules complete the genetic alignment sub-tasks, and the management module is connected to the computation modules and an interconnection device and used for monitoring the running status of the computation modules and a first interconnection module. According to the computing system and acceleration platform for the reconfigurable gene alignment, parallel processing is conducted on the genetic alignment sub-task by at least one computation module, and meanwhile the results of the genetic alignment sub-tasks which are processed by all the computation modules are retrieved by the first interconnection module so as to achieve the purpose of decentralized processing and centralized management, and thus the calculation efficiency of the gene alignment is further improved.

Description

technical field [0001] The invention relates to the technical field of bioinformatics, in particular to a reconfigurable gene comparison computing system and an acceleration platform. Background technique [0002] In 1953, Watson and Crick published the famous DNA double helix structure, which opened a new chapter in life science and ushered in a new era of science and technology. On the other hand, with the rapid development of computer science, a new subject is gradually jumping into people's field of vision and has received widespread attention, that is, the interdisciplinary subject of life science and computer science - bioinformatics. Bioinformatics is a powerful new technology, information technology and computing technology used to analyze, store and search massive biomedical data. On the other hand, bioinformatics is a new method and new way of thinking to study life science problems. It is a research method that starts from the whole genome, starts from the system...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G06F19/22G06F19/28
CPCG16B30/00G16B50/00
Inventor 权建校吴建元罗秋娴韩文报
Owner JIANGSU VARIABLE SUPERCOMP TECH
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