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| Simulation of real SNPs data and evaluation on the results |
| Liu Yunliang, Xiao Chun, Shi Xiaowen, Liu Yan |
| Department of Health Statistics, School of Public Health, Harbin Medical University, Harbin 150081, China |
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Abstract Objective To explore the effective methods of computer simulation based on real SNPs, and to explore the relationship between SNPs and diseases, in order to provide some help for gene-gene interaction research. Methods The real SNPs data were simulated by gs2.0 software, and the simulation results were evaluated by Haploview, Plink and MDR software. Results The 500, 1000, 5000 SNPs of chromosome 22 of the Dai population in China were used as the original data to generate the simulation data of single pathogenic site and two interacting pathogenic sites respectively by use of gs2.0 software. The results showed that the original data was similar to the LD model of the simulation data, and there were close r2 values. The difference of the single pathogenicity was significant, and the two interacting pathogens could be identified by MDR. Conclusion Gs2.0 is a simple and efficient computer simulation software, which can simulate the LD mode of SNPs and can set single pathogenic sites and two interaction sites to generate SNPs simulation data in batches.
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Received: 12 January 2017
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