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KMID : 0861120230270020035
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Korean Journal of Oriental Preventive Medicine
2023 Volume.27 No. 2 p.35 ~ p.48
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Identification of Potential Prognostic Biomarkers in lung cancer patients based on Pattern Identification of Traditional Korean Medicine Running title: A biomarker based on the Korean pattern identification for lung cancer
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Kim Ji-Hye
Cheong Hyun-Sub
Cheon Chun-Hoo
Kang Soo-Yeon
Kim Hyun-Koo
Shin Hyoung-Doo
Ko Seong-Gyu
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Abstract
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Objective : We studied prognostic biomarkers discovery for lung cancer based on the pattern identification for the personalized Korean medicine.
Methods : Using 30 tissue samples, we performed a whole exome sequencing to examine the genetic differences among three groups.
Results : The exome sequencing identified among 23,490 SNPs germline variants, 12 variants showed significant frequency differences between Xu and Stasis groups (P ?0.0005). As similar, 18 and 10 variants were identified in analysis for Xu vs. Gentleness group and Stasis vs. Gentleness group, respectively (P ?0.001). Our exome sequencing also found 8,792 lung cancer specific variants and among the groups identified 6, 34, and 12 variants which showed significant allele frequency differences in the comparison groups; Xu vs. Stasis, Xu vs. Gentleness group, and Stasis vs. Gentleness group. As a result of PCA analysis, in germline data set, Xu group was divided from other groups. Analysis using somatic variants also showed similar result. And in gene ontology analysis using pattern identification variants, we found genes like as FUT3, MYCBPAP, and ST5 were related to tumorigenicity, and tumor metastasis in comparison between Xu and Stasis. Other significant SNPs for two were responsible for eye morphogenesis and olfactory receptor activity. Classification of somatic pattern identification variants showed close relationship in multicellular organism reproduction, anion-anion antiporter activity, and GTPase regulator activity.
Conclusions : Taken together, our study identified 40 variants in 29 genes in association with germline difference of pattern identification groups and 52 variants in 47 genes in somatic cancer tissues.
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KEYWORD
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Pattern identification, Whole exome sequencing (WES), Lung cancer, Body constitution questionnaire (BCQ), Traditional Korean medicine (TKM)
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