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Pathway-based analysis of genome-wide association study of circadian phenotypes
Sleepiness affects normal social life, which attracts more and more attention. Circadian phenotypes contribute to obvious individual differences in susceptibility to sleepiness. We aimed to identify candidate single nucleotide polymorphisms (SNPs) which may cause circadian phenotypes, elucidate the...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Editorial Department of Journal of Biomedical Research
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6163116/ https://www.ncbi.nlm.nih.gov/pubmed/29784899 http://dx.doi.org/10.7555/JBR.32.20170102 |
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author | Zhu, Di-di Yuan, Jia-min Zhu, Rui Wang, Yao Qian, Zhi-yong Zou, Jian-gang |
author_facet | Zhu, Di-di Yuan, Jia-min Zhu, Rui Wang, Yao Qian, Zhi-yong Zou, Jian-gang |
author_sort | Zhu, Di-di |
collection | PubMed |
description | Sleepiness affects normal social life, which attracts more and more attention. Circadian phenotypes contribute to obvious individual differences in susceptibility to sleepiness. We aimed to identify candidate single nucleotide polymorphisms (SNPs) which may cause circadian phenotypes, elucidate the potential mechanisms, and generate corresponding SNP-gene-pathways. A genome-wide association studies (GWAS) dataset of circadian phenotypes was utilized in the study. Then, the Identify Candidate Causal SNPs and Pathways analysis was employed to the GWAS dataset after quality control filters. Furthermore, genotype-phenotype association analysis was performed with HapMap database. Four SNPs in three different genes were determined to correlate with usual weekday bedtime, totally providing seven hypothetical mechanisms. Eleven SNPs in six genes were identified to correlate with usual weekday sleep duration, which provided six hypothetical pathways. Our results demonstrated that fifteen candidate SNPs in eight genes played vital roles in six hypothetical pathways implicated in usual weekday bedtime and six potential pathways involved in usual weekday sleep duration. |
format | Online Article Text |
id | pubmed-6163116 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Editorial Department of Journal of Biomedical Research |
record_format | MEDLINE/PubMed |
spelling | pubmed-61631162018-10-01 Pathway-based analysis of genome-wide association study of circadian phenotypes Zhu, Di-di Yuan, Jia-min Zhu, Rui Wang, Yao Qian, Zhi-yong Zou, Jian-gang J Biomed Res Original Article Sleepiness affects normal social life, which attracts more and more attention. Circadian phenotypes contribute to obvious individual differences in susceptibility to sleepiness. We aimed to identify candidate single nucleotide polymorphisms (SNPs) which may cause circadian phenotypes, elucidate the potential mechanisms, and generate corresponding SNP-gene-pathways. A genome-wide association studies (GWAS) dataset of circadian phenotypes was utilized in the study. Then, the Identify Candidate Causal SNPs and Pathways analysis was employed to the GWAS dataset after quality control filters. Furthermore, genotype-phenotype association analysis was performed with HapMap database. Four SNPs in three different genes were determined to correlate with usual weekday bedtime, totally providing seven hypothetical mechanisms. Eleven SNPs in six genes were identified to correlate with usual weekday sleep duration, which provided six hypothetical pathways. Our results demonstrated that fifteen candidate SNPs in eight genes played vital roles in six hypothetical pathways implicated in usual weekday bedtime and six potential pathways involved in usual weekday sleep duration. Editorial Department of Journal of Biomedical Research 2018-09-26 2018-02-19 /pmc/articles/PMC6163116/ /pubmed/29784899 http://dx.doi.org/10.7555/JBR.32.20170102 Text en /creativecommons.org/licenses/by/4.0/ This is an open access article under the Creative Commons Attribution (CC BY 4.0) license, which permits others to distribute, remix, adapt and build upon this work, for commercial use, provided the original work is properly cited |
spellingShingle | Original Article Zhu, Di-di Yuan, Jia-min Zhu, Rui Wang, Yao Qian, Zhi-yong Zou, Jian-gang Pathway-based analysis of genome-wide association study of circadian phenotypes |
title | Pathway-based analysis of genome-wide association study of circadian phenotypes |
title_full | Pathway-based analysis of genome-wide association study of circadian phenotypes |
title_fullStr | Pathway-based analysis of genome-wide association study of circadian phenotypes |
title_full_unstemmed | Pathway-based analysis of genome-wide association study of circadian phenotypes |
title_short | Pathway-based analysis of genome-wide association study of circadian phenotypes |
title_sort | pathway-based analysis of genome-wide association study of circadian phenotypes |
topic | Original Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6163116/ https://www.ncbi.nlm.nih.gov/pubmed/29784899 http://dx.doi.org/10.7555/JBR.32.20170102 |
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