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Method and device for identifying clustered regularly interspaces short palindromic repeats (CRISPR)

A technology of palindromic repeat sequences and regular intervals, applied in special data processing applications, instruments, electrical digital data processing, etc. The effect of reducing false positives, improving accuracy and comprehensiveness

Active Publication Date: 2015-04-08
SHENZHEN INST OF ADVANCED TECH
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  • Abstract
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  • Claims
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AI Technical Summary

Problems solved by technology

In the above method, sometimes the piler-cr may mistakenly identify the DR boundary or truncate the DR, and the accuracy is not high. CRT and CRISPRFinder require the number of CRISPR repeats to be at least 2 or more. CRT sometimes mistakenly regards tandem repeats as CRISPR, resulting in false positives
Occasional false positives and ignored truncated DRs in CRISPRFinder script run results

Method used

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  • Method and device for identifying clustered regularly interspaces short palindromic repeats (CRISPR)
  • Method and device for identifying clustered regularly interspaces short palindromic repeats (CRISPR)
  • Method and device for identifying clustered regularly interspaces short palindromic repeats (CRISPR)

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Embodiment Construction

[0025] The following will clearly and completely describe the technical solutions in the embodiments of the present invention with reference to the accompanying drawings in the embodiments of the present invention. Obviously, the described embodiments are only some, not all, embodiments of the present invention. Based on the embodiments of the present invention, all other embodiments obtained by persons of ordinary skill in the art without making creative efforts belong to the protection scope of the present invention.

[0026] see figure 1 , is a schematic flowchart of the first embodiment of the method for identifying clustered regularly interspaced short palindromic repeat sequences provided by the embodiment of the present invention. The CRISPR identification method described in this embodiment includes steps:

[0027] S101, receiving a source file storing a DNA sequence;

[0028] In some feasible implementation modes, the source file described in the embodiment of the ...

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Abstract

The embodiment of the invention discloses a method for identifying clustered regularly interspaces short palindromic repeats (CRISPR). The method comprises the following steps: according to a DR (Direct Repeats) template in a source file, determining a first-generation CRISPR; after the missed DR in an undetermined spacer sequence between two pieces of adjacent first-generation CRISPR is added, determining a second-generation CRISPR; determining the CRISPR of which the SPACER similarity is lower than a preset threshold value in the second-generation CRISPR as a third-generation CRISPR; and determining the third-generation CRISPR of which two ends are provided with the DR as a four-generation CRISPR. The embodiment of the method can reduce misinformation or ignore the cut-off DR so as to improve the identification accuracy and comprehensiveness of the CRISPR.

Description

technical field [0001] The invention relates to the technical field of gene sequence identification, in particular to a method for identifying clustered regularly spaced short palindromic repeat sequences. Background technique [0002] DNA is a molecule that can form genetic instructions to guide biological development and life functions; RNA is a single strand formed by transcription based on a strand of DNA as a template and based on the principle of complementary base pairing. Its main function is to realize genetic information The expression on protein is a bridge in the process of genetic information transmission; clustered regularly interspaced short palindromic repeats (CRISPR, Clustered regularly interspaced short palindromic repeats) is a regulatory RNA in prokaryotes discovered in recent years; The CRISPR structure generally consists of a series of highly conserved direct repeat sequences (DR) and a spacer with a certain length in between. The length of DR general...

Claims

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Application Information

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IPC IPC(8): G06F19/22
Inventor 周丰丰葛瑞泉麦国琴王普刘记奎赵苗苗
Owner SHENZHEN INST OF ADVANCED TECH
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