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Amplicon data processing method, system and platform and storage medium

A data platform and storage medium technology, applied in the biological field, can solve the problems of few results, cumbersome process, and impossibility to improve the experimental process in a targeted manner, and achieve the effects of high adaptability, strong scalability, and intelligent and simple processing methods

Active Publication Date: 2019-11-26
广州奇辉生物科技有限公司
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  • Abstract
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  • Claims
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Problems solved by technology

[0004] The results of the above general software output are relatively small, and the overall data cannot be summarized, and multiple softwares are required for operation, the process is cumbersome and slow; it cannot analyze each The capture efficiency of the amplicon cannot be targeted to improve the technical problem of the experimental process. The present invention provides a method, system, platform and storage medium for processing amplicon data, using an efficient, intelligent and simple processing method, To achieve the purpose and effect of processing amplicon data

Method used

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Embodiment 1

[0112] Specifically, Embodiment 1: The following takes the ctLungv4.0 project as an example to illustrate the implementation of the present invention.

[0113] Step 1, under the source folder of the Amppro software root directory, create a new input_ampRef_ctLungv4.0_44.txt file, the content format of which is as follows (only the first five lines are displayed):

[0114] 1ALK_01|chr2:29432636-29432735

[0115] 2ALK_02|chr2:29436795-29436892

[0116] 3ALK_03|chr2:29443554-29443655

[0117] 4ALK_04|chr2:29443652-29443751

[0118] 5ALK_05|chr2:29445134-29445247

[0119] Step 2, in the projectamp.txt file under the input folder of the Amppro software root directory, add a new line, the content is

[0120] ctLungv4.0input_ampRef_ctLungv4.0_44.txt

[0121] Step 3, generate the project sample information file sampleinfo.txt, the content format is as follows:

[0122] Sample_ID, Sample_Name, Sample_Plate, Sample_Well, I7_Index_ID, index, I5_Index_ID, index2, Sample_Project, Des...

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Abstract

The invention relates to the technical field of biology, in particular to an amplicon data processing method, system and platform and a storage medium. The method comprises the steps of: obtaining offline amplicon data, and placing the offline amplicon data of the same batch according to the project type; removing and filtering the amplicon data; obtaining reference genome data, and comparing amplicon data obtained after removal and filtration processing with a reference genome to obtain a format file after amplicon comparison; and acquiring an amplicon information file, comparing the ampliconinformation file with the amplicons, and performing statistical analysis processing on the format file to obtain capture data of each amplicon. According to the method, an efficient, intelligent, simple and convenient processing mode can be realized to achieve the purpose of processing amplicon data, and the method is high in adaptability and expansibility.

Description

technical field [0001] The present invention relates to the field of biotechnology, in particular to a method, system, platform and storage medium for processing amplicon data. Background technique [0002] High-throughput sequencing technology is a routine experimental method for modern basic biological research and medical testing. With the development of high-throughput sequencing technology, the cost of sequencing has decreased, and the next-generation sequencing technology has promoted the rapid development of sequencing technology by constructing the whole genome map of a large number of conventional species. However, whole genome sequencing still has problems such as complex structure, large amount of data, long cycle and high cost. Amplicon Sequencing (Amplicon Sequencing) is a method of sequencing only specific genomic regions of interest to researchers. By designing primers for the target region, and then using PCR to amplify, enrich the region of interest, and t...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B30/10G16B50/30
CPCG16B30/10G16B50/30
Inventor 朱奇潘钊文廖传荣
Owner 广州奇辉生物科技有限公司
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