Predicting and analyzing early wake-up associated gene expressions by integrating GWAS and eQTL studies
文献类型：期刊论文
| 作者 | Li, JiaRui2; Huang, Tao1; , |
| 刊名 | BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE
 |
| 出版日期 | 2018 |
| 卷号 | 1864期号:6页码:2241-2246 |
| 关键词 | Circadian rhythm Early wake-up Dagging Maximum-relevance-minimum-redundancy |
| ISSN号 | 0925-4439 |
| DOI | 10.1016/j.bbadis.2017.10.036 |
| 文献子类 | Article |
| 英文摘要 | Circadian rhythms are endogenous 24-hour rhythmic oscillations affecting human behaviors, such as sleep, blood pressure and other biological processes, the disturbance of which lead to circadian rhythm sleep disorders (CRSDs). In this study, based on the data from genome-wide association studies (GWASs) and expression quantitative trait loci (eQTLs), we tried to identify novel gene expression patterns in brain tissues that were associated with early wake-up. First, the maximum-relevance-minimum-redundancy (mRMR) method was adopted to analyze the involved gene expression patterns, yielding a feature list. Second, the incremental feature selection (IFS) method and the Dagging algorithm were applied to extract important gene expression patterns, which yield the best performance for Dagging. As a result, 4374 gene expression patterns were obtained, and they were further used to build an optimal classifier with a good performance of a Matthews's correlation coefficient of 0.933. Furthermore, the most important 49 gene expression patterns were extensively analyzed. Four genes were found to be related to circadian rhythm, as reported in previous studies. As a first attempt in identifying the target genes whose expression levels are associated with sleep-wake rhythms through integrating GWAS and eQTL results, this study can motivate more investigations in this regard. This article is part of a Special Issue entitled: Accelerating Precision Medicine through Genetic and Genomic Big Data Analysis edited by Yudong Cai & Tao Huang. |
| 学科主题 | Biochemistry & Molecular Biology ; Biophysics ; Cell Biology |
| WOS关键词 | GENOME-WIDE ASSOCIATION ; AMINO-ACID-COMPOSITION ; FEATURE-SELECTION ; MOLECULAR FRAGMENTS ; SLEEP DISORDERS ; NARCOLEPSY ; CATAPLEXY ; IDENTIFICATION ; REDUNDANCY ; RELEVANCE |
| 语种 | 英语 |
| WOS记录号 | WOS:000432105500004 |
| 出版者 | ELSEVIER SCIENCE BV |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.144/handle/331004/584]  |
| 专题 | 中国科学院上海生命科学研究院营养科学研究所 |
| 作者单位 | 1.Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Hlth Sci, Shanghai 200031, Peoples R China, 2.Shanghai Univ, Coll Life Sci, Shanghai 200444, Peoples R China; |
| 推荐引用方式 GB/T 7714 | Li, JiaRui,Huang, Tao,,. Predicting and analyzing early wake-up associated gene expressions by integrating GWAS and eQTL studies[J]. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE,2018,1864(6):2241-2246. |
| APA | Li, JiaRui,Huang, Tao,&,.(2018).Predicting and analyzing early wake-up associated gene expressions by integrating GWAS and eQTL studies.BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE,1864(6),2241-2246. |
| MLA | Li, JiaRui,et al."Predicting and analyzing early wake-up associated gene expressions by integrating GWAS and eQTL studies".BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE 1864.6(2018):2241-2246. |
入库方式： OAI收割
来源：上海营养与健康研究所
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