Methylated molecular marker or combination thereof for detecting benign and malignant pulmonary nodules and application of methylated molecular marker or combination thereof
A technology of molecular markers and methylation, which is applied in biochemical equipment and methods, recombinant DNA technology, microbial measurement/testing, etc., to achieve the effect of improving patient survival rate, reducing false positive rate, and improving detection rate
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Embodiment 1
[0155] A kit for the detection of benign and malignant pulmonary nodules in respiratory samples, including 13 detection genes B3GNTL1, DLX4, HOXA1, HOXA9, HOXB4, MSC-AS1, OTX2, PREX1, PTGER4, RASSF1, SHOX2, TWIST1 and ZNF781 The detection primers and probes of DNA methylation molecular markers Marker1 to Marker21 in 21 methylated regions, the detection region sequence and sequence number of each DNA methylation molecular marker are specifically shown in Table 1 (wherein each region The underlined part is the Marker of the corresponding sequence of the fragment amplified by the preferred primers used in the embodiment):
[0156] Table 1. Molecular marker detection region sequence
[0157]
[0158]
[0159]
[0160] The kit has designed three pairs of primers and three probes for each of the specific methylation sites in 21 molecular markers Marker1 to Marker21 for the detection of benign and malignant pulmonary nodules in respiratory samples (probe fluorescent labels c...
Embodiment 2
[0173] In this example, the kit described in Example 1 is used to detect the methylation levels of Marker1 to Marker21 in respiratory samples.
[0174] A method for detecting methylation levels of DNA methylation molecular markers, comprising the following steps:
[0175] 1. Extraction of gDNA from respiratory samples:
[0176] 1) Extraction of gDNA from paraffin section samples of lung tissue: the specific operation steps of gDNA extraction from paraffin tissue were carried out according to the instructions of Qiagen's ALLPrep DNA / RNA FFPE Kit;
[0177] 2) Extraction of gDNA from the respiratory fluid sample: First, the respiratory fluid sample was centrifuged at a low speed at 4°C, 5000g, for 5min; the supernatant was removed, and the precipitate was collected; Blood&Tissue Kit instructions were used to extract gDNA.
[0178] 2. Perform sulfite conversion on the extracted gDNA
[0179] The extracted gDNA is subjected to bisulfite conversion, and 20-50ng of gDNA is put in...
Embodiment 3
[0206] This embodiment provides the detection of molecular markers in standard products, and the detection steps are as follows:
[0207] 1. Standard product preparation
[0208] 1) Preparation of 0% methylation standard:
[0209] use Single Cell Kit (Qiagen, Cat#150343) and Mung Bean Nuclease (NEB, Cat#M0250L) were used to process NA12878 DNA to prepare 0% methylation standard;
[0210] 2) Preparation of 100% methylation standard:
[0211] The prepared 0% methylation standard was treated with CpG Methyltransferase (M.SssI) to obtain a 100% methylation standard.
[0212] 2. Preparation of standard products with different methylation ratios:
[0213] Mix 0% and 100% methylation standards according to the desired methylation ratio gradient to obtain 0.2%, 0.4%, and 1% methylation ratio standards.
[0214] 3. Perform bisulfite conversion on standard DNA with different methylation ratios: the steps are as in Example 2, and the conversion input amount is 10-50 ng, preferably ...
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