涉及家族和部落关系的STR-DNA相似性计算的高斯模糊数。

Q1 Biochemistry, Genetics and Molecular Biology
Advances in Bioinformatics Pub Date : 2018-07-29 eCollection Date: 2018-01-01 DOI:10.1155/2018/8602513
Maria Susan Anggreainy, M Rahmat Widyanto, Belawati H Widjaja, Nurtami Soedarsono
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引用次数: 3

摘要

通过测量个体基因座与参考基因座之间的模糊交集进行基因座相似度计算,然后进行CODIS STR-DNA相似度计算。模糊交集计算使CODIS STR-DNA相似性计算更加稳健,避免了PCR机产生的噪声带来的不精确性。我们还提出了移位卷积高斯模糊数(SCGFN)和高斯模糊数(GFN)来表示每个位点值,作为对三角模糊数(TFN)的改进。与三角模糊数(TFN)相比,GFN假设轨迹信息的分布为高斯分布,因此更能真实地表达轨迹信息的不确定性。然后,将原高斯模糊数(GFN)与某些民族基因座信息的分布进行卷积,得到比原高斯模糊数更能代表民族信息的新高斯模糊数。实验针对以下情况进行:有家庭关系的人,同一部落的人,以及特定的部落人口。方差分析(ANOVA)的统计检验显示,SCGFN、GFN和TFN之间的相似性差异显著水平为95%。方差分析中的Tukey方法表明,SCGFN产生了更高的相似性,这意味着比GFN和TFN方法更好。该方法使CODIS STR-DNA相似度计算对噪声的鲁棒性更强,能够更好地计算涉及家族和部落关系的CODIS相似度。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Gaussian Fuzzy Number for STR-DNA Similarity Calculation Involving Familial and Tribal Relationships.

Gaussian Fuzzy Number for STR-DNA Similarity Calculation Involving Familial and Tribal Relationships.

Gaussian Fuzzy Number for STR-DNA Similarity Calculation Involving Familial and Tribal Relationships.

Gaussian Fuzzy Number for STR-DNA Similarity Calculation Involving Familial and Tribal Relationships.

We performed locus similarity calculation by measuring fuzzy intersection between individual locus and reference locus and then performed CODIS STR-DNA similarity calculation. The fuzzy intersection calculation enables a more robust CODIS STR-DNA similarity calculation due to imprecision caused by noise produced by PCR machine. We also proposed shifted convoluted Gaussian fuzzy number (SCGFN) and Gaussian fuzzy number (GFN) to represent each locus value as improvement of triangular fuzzy number (TFN) as used in previous research. Compared to triangular fuzzy number (TFN), GFN is more realistic to represent uncertainty of locus information because the distribution is assumed to be Gaussian. Then, the original Gaussian fuzzy number (GFN) is convoluted with distribution of certain ethnic locus information to produce the new SCGFN which more represents ethnic information compared to original GFN. Experiments were done for the following cases: people with family relationships, people of the same tribe, and certain tribal populations. The statistical test with analysis of variance (ANOVA) shows the difference in similarity between SCGFN, GFN, and TFN with a significant level of 95%. The Tukey method in ANOVA shows that SCGFN yields a higher similarity which means being better than the GFN and TFN methods. The proposed method enables CODIS STR-DNA similarity calculation which is more robust to noise and performed better CODIS similarity calculation involving familial and tribal relationships.

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来源期刊
Advances in Bioinformatics
Advances in Bioinformatics Biochemistry, Genetics and Molecular Biology-Biochemistry, Genetics and Molecular Biology (miscellaneous)
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