Cancer detection model and construction method and kit thereof

A technology for cancer detection and construction methods, applied in the fields of genomics, instrumentation, proteomics, etc., to achieve the effect of improving efficiency and accuracy

Pending Publication Date: 2021-12-24
BERRY ONCOLOGY CO LTD
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  • Abstract
  • Description
  • Claims
  • Application Information

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Problems solved by technology

[0006] Based on the above situation, for the early screening and diagnosis of tumors, the sensitivity and specificity of the current research directions also have their own advantages and disadvantages. On the whole, there is no particularly ideal result that can meet people's expectations.

Method used

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  • Cancer detection model and construction method and kit thereof
  • Cancer detection model and construction method and kit thereof
  • Cancer detection model and construction method and kit thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0113] Refer to attached figure 1 , this embodiment provides a method for constructing a cancer detection model, which includes the following steps.

[0114] 1. Extraction of cfDNA and low-depth WGS sequencing.

[0115] Plasma separation: Peripheral blood is collected in a non-invasive anticoagulant tube, and the sample information and sample status are recorded and checked. Put the blood collection tube in a centrifuge for centrifugation, absorb the supernatant and centrifuge again, and absorb the supernatant again to obtain a plasma sample.

[0116] Extraction of cell-free DNA (cfDNA) in blood: Cell-free DNA in plasma was extracted with a plasma free DNA extraction kit. After the plasma is completely melted, centrifuge at high speed, transfer the centrifuged plasma, add lysate, magnetic beads and other reagents respectively, shake and mix, react for a period of time, then use the cleaning solution to wash, and use the eluent to recover DNA.

[0117] DNA quality detection:...

Embodiment 2

[0139] Adopt the construction method of embodiment 1 to carry out the construction of cancer detection model (integration model), use the result of cancer detection model (integration model) and liver cancer-related clinical index (AFP) to calculate AUC value and compare the classification results of the two ( Image 6 ).

[0140] As shown in the figure, the traditional AFP detection sensitivity and specificity are 53.77% and 90.81%, and the AUC is lower than 0.85, while the sensitivity and specificity in the verification set of the present invention are 95.79% and 97.00%, and the AUC is 0.996, and the sensitivity and specificity in the test set The accuracy is 95.52% and 97.91%, and the AUC is 0.996 (finally subject to the test set effect), which greatly improves the detection accuracy.

[0141] The results of the cancer detection model (integrated model) provided by Example 1 and the model constructed by the single classification index obtained by data mining are used to cal...

Embodiment 3

[0146] For tumor patients in different BCLC stages, there is basically no difference in the prediction scores of the integrated model, so it can be concluded that it is applicable to each stage of the tumor ( Figure 8 ). This result shows that the integrated model scoring method used in the present invention is obviously better than the current clinical indicators.

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Abstract

The invention discloses a cancer detection model, a construction method thereof and a kit, and relates to the technical field of cancer detection. The method comprises the following steps: excavating nucleosome distribution characteristics, terminal sequence characteristics and fragment size distribution characteristics which can be applied to cancer detection through whole genome sequencing of plasma free DNA; constructing a classification model of the three indexes to obtain a prediction score of each index for a sample, and then using a logic regression model to integrate the scores and add copy number variation feature information to obtain a final classification prediction model. According to the cancer detection model, the efficiency and accuracy of cancer detection are remarkably improved, the amount of data needed for analysis is small, the detection cost is low, different cancers can be detected, and the cancer detection model is suitable for analyzing and predicting tumors in all periods. In addition, the kit provided by the invention can complete detection of indexes required by a detection model, so the kit can be innovatively applied to the field of cancers in ctDNA detection.

Description

technical field [0001] The invention relates to the technical field of cancer detection, in particular to a cancer detection model and its construction method and kit. Background technique [0002] Malignant tumors have become one of the major public health problems that seriously threaten the health of the world population, and the prevention and control situation is grim. According to the latest global cancer burden data report in 2020, there are about 19.29 million new cancer cases and 9.96 million deaths worldwide. Cancer is the first or second leading cause of human death in 112 countries around the world. If the growth rate in 2020 is maintained, it is predicted that by 2040, new cases will reach 28.4 million globally, an increase of 47% from 19.29 million in 2020, and a net increase of 4.1 million new cases in 2040. This forecast is due to population The growth and aging factors may increase further. As the economy has developed rapidly, so has the prevalence of man...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): G16B40/20G16B20/10G16B20/20
CPCG16B40/20G16B20/10G16B20/20
Inventor 张清政郑璐孙福明白健王寅李小玲吴琳
Owner BERRY ONCOLOGY CO LTD
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