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HLA sequencing peak graph identification method

A map recognition and sequencing technology, applied in the field of peak map recognition of HLA next-generation sequencing, can solve problems such as inability to accurately identify sequences, and achieve the effects of long time-consuming, high recognition accuracy, and strong ease of use.

Active Publication Date: 2019-05-14
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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  • HLA sequencing peak graph identification method

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Embodiment

[0030] Example HLA sequencing peak map recognition 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 ,S...

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Abstract

The invention discloses an HLA sequencing peak graph identification method, which comprises the following steps of: (1) constructing a peak graph identification model: (1) collecting machine peak graph data under the existing HLA, and (2) pre-processing to complete information extraction, original sequence comparison, sequence segmentation and dislocation repair work of a binary ab1 file; 3, feature extraction; (4) collecting a large amount of artificially recognized data, training the data by using a random forest algorithm, and constructing a peak graph recognition model; (2) carrying out base recognition on the to-be-detected HLA first-generation sequencing original off-machine data by utilizing a peak diagram recognition model; (3) arranging the recognized base sequence, and reassembling the single-chain and double-chain part sequences; and (4) outputting an identification result. According to the recognition method, the peak diagram sequence information can be accurately obtained,the overall accuracy is 99.5% or above, and the working efficiency of HLA data interpretation personnel is greatly improved.

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 Applications(China)
IPC IPC(8): G06K9/00
Inventor 丛华剑王连水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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