A hla sequencing peak map identification method

A graph recognition and sequencing technology, which is applied in the peak map recognition field of HLA generation sequencing, can solve problems such as inability to accurately identify sequences, and achieve the effects of long time consumption, high recognition effect, and strong ease of use

Active Publication Date: 2021-04-20
银丰基因科技有限公司 +1
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Problems solved by technology

[0004] In view of the above-mentioned prior art, in order to solve the problem that the peak map of HLA first-generation sequencing cannot accurately identify its sequence in the traditional method, the present invention provides a method for identifying the peak map of HLA sequencing

Method used

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  • A hla sequencing peak map identification method
  • A hla sequencing peak map identification method
  • A hla sequencing peak map identification method

Examples

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Embodiment

[0030] Example HLA sequencing peak map identification method

[0031] The steps are as follows (the flow chart is as follows figure 1 shown):

[0032] (1) Constructing a electropherogram recognition model:

[0033] ①Collect a large amount of artificially identified data and import it into the preprocessing module of the electropherogram identification system, such as image 3 shown;

[0034] ②Preprocess the imported HLA electropherogram data, complete the information extraction of the binary ab1 file, the original sequence comparison, sequence segmentation and dislocation repair;

[0035] The "preprocessing" includes multiple processing of electropherogram data (flow chart as figure 2 Shown): electropherogram reading, sequence comparison, dislocation repair, data arrangement; in the electropherogram reading stage, the data identification and reading of off-machine sequencing files are mainly completed (converting binary electropherogram data files into ordinary text data ...

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Abstract

The invention discloses a method for HLA sequencing peak map recognition: (1) building a peak map recognition model: ① collecting the existing HLA off-board peak map data, ② performing preprocessing to complete the information extraction of the binary ab1 file, and comparing the original sequence Yes, sequence segmentation and dislocation repair work; ③ feature extraction; ④ collect a large amount of artificially identified data, use the random forest algorithm to train the data, and build a peak map recognition model; (2) use the peak map recognition model to sequence the original HLA generation Perform base recognition on the off-machine data; (3) sort out the identified base sequences, and reassemble the single-stranded and double-stranded partial sequences; (4) output the recognition results. The recognition method of the present invention can accurately obtain peak map sequence information, and the overall accuracy rate is above 99.5%, which greatly improves the work efficiency of HLA data interpretation personnel.

Description

technical field [0001] The invention relates to an HLA sequencing peak pattern identification method, which is applied to the peak pattern identification of HLA first-generation (Sanger) sequencing. Background technique [0002] At present, the development of peak map recognition technology is one of the current research hotspots, and researchers have developed a variety of peak map recognition technologies, for example: Chinese invention patent CN 102676657 B discloses a sequencing image recognition system and method, which is based on Image recognition is a recognition system for judging base types. Chinese invention patent application CN 108351917 A discloses a system and method for identifying variants with high precision, which is a method for matching and typing based on patient sequence reads and reference sequences of known HLA alleles; in addition , uTYPE HLA Sequencing Software adopts the method of setting a threshold on the electropherogram to identify the base s...

Claims

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): G06K9/00
Inventor 丛华剑王连水洪轲徐明张倩李庆林张琛齐效乾
Owner 银丰基因科技有限公司
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