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Series GSE148375 Query DataSets for GSE148375
Status Public on Apr 10, 2020
Title An Exome-Wide Association Study Identifies New Susceptibility Loci for the Risk of Nicotine Dependence in African-American Populations
Organism Homo sapiens
Experiment type Genome variation profiling by array
SNP genotyping by SNP array
Summary Cigarette smoking is one of the largest causes of preventable death worldwide. Smoking behaviors, including age at smoking initiation (ASI), smoking dependence (SD), and smoking cessation (SC), are all complex phenotypes determined by both genetic and environmental factors as well as their interactions. To identify susceptibility loci for each smoking phenotype, numerous studies have been conducted, with approaches including genome-wide linkage scans, candidate gene-based association analysis, and genome-wide association study (GWAS). Therefore, we conducted an exome-wide association study to identify new susceptibility loci for the risk of nicotine dependence in African-American populations.
Overall design To reveal the molecular mechanism underling each smoking phenotype, we used high-throughput approaches such as exome-based association study to identify genetic variants that contribute to nicotine dependence and other smoking-related phenotypes. First, we evaluated each common variant individually with a univariate statistic; i.e., logistic and linear regression models. Second, rare variants were grouped by genomic regions and analysed using burden tests, i.e., the Weighted Sum Statistic (WSS). Third, we tested for combined effects of rare and common variants with a unified statistical test that allows both types of variants to contribute fully to the overall test statistic.
Contributor(s) Li MD
Citation(s) 32477189, 35875672
Submission date Apr 09, 2020
Last update date Aug 03, 2022
Contact name Yi Xu
Organization name The First Affiliated Hospital, Zhejiang University School of Medicine
Department State Key Laboratory for Diagnosis and Treatment of Infectious Diseases
Street address No. 17, Dazhi Road, old Zhejiang, Shangcheng District
City Hangzhou
State/province Zhejiang
ZIP/Postal code 310009
Country China
Platforms (1)
GPL18545 Illumina HumanExome-12 v1.1 BeadChip
Samples (3399)
GSM4463148 Blood, Smoker_1
GSM4463149 Blood, Smoker_2
GSM4463150 Blood, Smoker_3
BioProject PRJNA624118

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE148375_RAW.tar 14.8 Gb (http)(custom) TAR (of IDAT)
GSE148375_processed_data.txt.gz 48.1 Mb (ftp)(http) TXT
Processed data are available on Series record

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