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Cancer screening model, and construction method and construction device of cancer screening model

A construction method and cancer technology, applied in the fields of medical data mining, character and pattern recognition, medical automatic diagnosis, etc., can solve problems such as difficulty in improving the accuracy of detection, and achieve the effect of improving accuracy.

Active Publication Date: 2021-08-13
北京橡鑫生物科技有限公司 +2
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0006] The present invention aims to provide a cancer screening model, a method for constructing a cancer screening model, and a construction device to solve the technical problem in the prior art that it is difficult to improve the accuracy of detection without increasing the number of detected genes or the detection depth

Method used

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  • Cancer screening model, and construction method and construction device of cancer screening model
  • Cancer screening model, and construction method and construction device of cancer screening model
  • Cancer screening model, and construction method and construction device of cancer screening model

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Embodiment 1

[0071] Objective: Through the processed data characteristics, model training, then use the test set verification model accuracy.

[0072] step:

[0073] 1. Establish a data set consisting of 29 healthy urine samples, 21 bladder cancer patients.

[0074]2. Baseline Baselines are constructed based on the CFDNA sample of normal population. Construction Process Step 1: Sequencing 60 normal populations CFDNA compared to the reference genome, and obtains the BAM file. Step 2: By referring to the Bed file of the genomic Fasta file with the WGS, build a new coordinate file preProcessed.InterVal.List using the preducessintervals command in Gatk. Step 3: By the coordinate file available in step 2 Preprocessed.Interval.List, some reference genome Fasta files, 60 normal populations CFDNA sequencing comparison BAM files, using the collection of the collectreadcounts command to get each sample The corresponding READS statistics file records the number of READs in each interval bin. Step 4: By r...

Embodiment 2

[0093] In this embodiment, a construction device for a cancer screening model is provided. The build device includes: CNVBaseline build module, set to construct a different CNV Baseline; genome feature acquisition module based on different data, setting SWGS data to detect samples with different CNV Baseline, and acquires multiple genome; The final genome feature determination module is set to establish a training set and test set using SWGS data to be detected, and the value of each genomic feature is used to select a genomic feature of the AUC value as the final genomic feature; model training module, set to Model training is performed on the final genomic characteristics to obtain cancer screening models.

[0094] Specifically, cancer is bladder cancer, and the sample to be tested includes a healthy population of urine peatdracery with bladder cancer patients with urine.

[0095] The CNV Baseline build module includes: CFCNV Baseline constructing a sub-module set to select a pr...

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Abstract

The invention discloses a cancer screening model, and a construction method and a construction device of a cancer screening model. The construction method comprises the following steps: constructing different CNV baselines on the basis of different data; performing CNV detection on sWGS data of a to-be-detected sample by using the different CNV baselines to obtain a plurality of genome characteristics; establishing a training set and a test set by using the sWGS data of the to-be-detected sample, making an ROC curve by using the numerical value of each genome characteristic, and selecting the genome characteristic with the maximum AUC value as a final genome characteristic; carrying out model training on the final genome characteristic to obtain a cancer screening model. According to the invention, under the condition that sWGS is incorporated, a plurality of genome characteristics are obtained based on different baseline data, a training set and a test set are established, a cancer screening model is established through a machine learning method, and the accuracy of cancer (early stage) screening is improved.

Description

Technical field [0001] The present invention relates to the field of biotechnology, and in particular, there is a method of constructing a cancer screening model, a construction method of a cancer screening model. Background technique [0002] Bladder cancer is a common malignant tumor and is the most common malignant tumor of urinary system. At present, the bladder cancer monitoring method relies on repeated cystoscopy, puncture biopsy, imaging examination. The cystoscopy is considered to be a gold standard for the diagnosis of bladder cancer. However, when these efforts consume, the cost is high, which is poor in situ cancer, and may result in urinary tract infections, urethral injury, bladder injury and other complications. During the puncture of the biopsy, it will be trauma for the organization due to high intrusion. Imaging examination has radiation damage, and these routine inspection methods will bring pain to patients. [0003] Because of its particularity of its morbidi...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B40/20G16B40/00G16B20/20G16H50/20G16H50/70G06K9/62
CPCG16B40/20G16B40/00G16B20/20G16H50/20G16H50/70G06F18/24323
Inventor 曹善柏周涛张萌萌郭璟孙宏楼峰
Owner 北京橡鑫生物科技有限公司