SNP (Single Nucleotide Polymorphism) marker correlated to assistant diagnosis of noncardia cancer and application thereof

A technology for auxiliary diagnosis, non-cardia cancer, applied in the field of SNP markers

Active Publication Date: 2012-07-04
NANJING MEDICAL UNIV
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0005] However, there is no report on the application of SNP in the diagnosis of non-cardia cancer. If the SNPs that are susceptible to non-cardia cancer can be screened out as biomarkers, and the corresponding diagnostic

Method used

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  • SNP (Single Nucleotide Polymorphism) marker correlated to assistant diagnosis of noncardia cancer and application thereof
  • SNP (Single Nucleotide Polymorphism) marker correlated to assistant diagnosis of noncardia cancer and application thereof
  • SNP (Single Nucleotide Polymorphism) marker correlated to assistant diagnosis of noncardia cancer and application thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0067] The collection of embodiment 1 sample and the arrangement of sample data

[0068] From 2004 to 2010, the inventor collected a large number of blood samples from patients with non-cardia cancer from the Cancer Center of Nanjing Medical University. After sorting out the sample data, the inventor selected 7263 samples that met the following criteria. Whole-genome microarray scanning and Experimental samples for single SNP TaqMan genotyping:

[0069] 1. Non-cardia cancer patients with definite pathological diagnosis;

[0070] 2. Healthy controls matched with the age and sex of the cases;

[0071] The demographic data and clinical data of these samples were collected systematically.

Embodiment 2

[0072] Whole Genome Scanning of SNP in Example 2 Peripheral Blood DNA

[0073]Among the 1006 eligible non-cardia cancer patients and 2273 healthy controls mentioned above, the two groups were matched in age and gender. The two groups of people were detected by Affymetrix6.0 chip to obtain relevant results. The specific steps are:

[0074] 1. Add the hemolysis reagent to the leukocytes stored in the 2ml cryopreservation tube, mix it upside down and transfer it completely.

[0075] 2. Removal of red blood cells: Fill the 5ml centrifuge tube to 4ml with hemolysis reagent, mix by inverting, centrifuge at 4000rpm for 10 minutes, and discard the supernatant. Add 4ml of hemolysis reagent to the precipitate, invert and wash again, centrifuge at 4000rpm for 10 minutes, and discard the supernatant.

[0076] 3. Extract DNA: Add 1ml extract solution to the precipitate (each 300ml contains 122.5ml 0.2M sodium chloride, 14.4ml 0.5M ethylenediaminetetraacetic acid, 15ml 10% sodium dodecyl...

Embodiment 3

[0083] TaqMan genotyping of embodiment 3 single SNP

[0084] The SNPs found to be associated with the onset of non-cardia cancer in the above genome-wide scan were detected in another 1894 non-cardia cancer cases and 2090 healthy controls. The specific steps were as follows:

[0085] 1. Add the hemolysis reagent to the leukocytes stored in the 2ml cryopreservation tube, mix it upside down and transfer it completely.

[0086] 2. Removal of red blood cells: Fill the 5ml centrifuge tube to 4ml with hemolysis reagent, mix by inverting, centrifuge at 4000rpm for 10 minutes, and discard the supernatant. Add 4ml of hemolysis reagent to the precipitate, invert and wash again, centrifuge at 4000rpm for 10 minutes, and discard the supernatant.

[0087] 3. Extract DNA: Add 1ml of extract solution and 8μl of proteinase K to the precipitate, fully oscillate and mix on a shaker, and bathe overnight at 37°C.

[0088] 4. Remove protein: add 1ml of saturated phenol and mix well (shake gently...

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Abstract

The invention belongs to the fields of gene engineering and tumor medicines, and discloses an SNP (Single Nucleotide Polymorphism) marker correlated to assistant diagnosis of noncardia cancer and application thereof. The marker is a combination of the following 25 SNP: rs1950476, rs238889, rs7973779, rs1445227, rs7528071, rs1549058, rs9841504, rs749130, rs17032274, rs3027247, rs9578831, rs714842, rs17262413, rs16924994, rs13361707, rs12496648, rs2826151, rs12416175, rs3753473, rs7349868, rs60266313 and the like. The marker can be used for preparing an assistant diagnosis kit for the noncardia cancer.

Description

field of invention [0001] The invention belongs to the field of genetic engineering and tumor medicine, and relates to a SNP marker related to the auxiliary diagnosis of non-cardia cancer and its application. Background technique [0002] Gastric cancer is one of the most common malignant tumors worldwide. According to the World Health Organization, in 2008, there were about 1 million new cases of gastric cancer worldwide, accounting for 7.8% of all tumors, second only to lung cancer, breast cancer and colorectal cancer. More than 70% of gastric cancer cases occur in developing countries, 50% of which occur in China. In my country, the age-standardized incidence rate of gastric cancer is 41.3 / 100,000 for men and 18.5 / 100,000 for women, second only to lung cancer. About 90%-95% of gastric cancers are adenocarcinomas, originating from the gastric epithelium. Anatomically, it can be divided into cardia cancer and non-cardia cancer. Cardiac carcinoma is an adenocarcinoma occ...

Claims

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Application Information

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IPC IPC(8): C12Q1/68C12N15/11
Inventor 沈洪兵胡志斌靳光付马红霞董静朱陈
Owner NANJING MEDICAL UNIV
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