if(!requireNamespace("remotes",quietly=TRUE))install.packages("remotes")if(!requireNamespace("MRInstruments",quietly=TRUE))remotes::install_github("MRCIEU/MRInstruments")library(MRInstruments) 2.GWAS catalog: data(gwas_catalog)head(gwas_catalog)#例如,使用Speliotes等人2010年的研究获得BMI的工具变量...
步骤1、我们可以在GWAS Catalog中按论文的PMID(33414549)进行搜索: 步骤2、下拉至Studies,点击非认知能力表型相应的编号:GCST90011874: 步骤3、找到Full Summary Statistics,这里代表的就是能够获得完整GWAS Summary Results的地方(again,凡事没有绝对,不一定每一个表型都提供): 步骤4、下载GWAS Summary Results至本地...
GWAS Catalog:https://www.ebi.ac.uk/gwas/ GWAS Central:https://www.gwascentral.org/ Case Control GWAS (Genome Wide Association Study) Database:https://gwas.biosciencedbc.jp/cgi-bin/gwasdb/gwas_top.cgi GWAS atlas:https://atlas.ctglab.nl/ UKBB GWAS:https://www.ukbiobank.ac.uk/tag/gwas...
write.table(f,"GWAS_AF_Finn.txt",sep = "\t",row.names = FALSE,quote = FALSE) #SMR/GSMR格式转化---GWAS catalog格式 library(tidyverse) library(data.table) setwd("稳健分析GCST274790_AF6414andFinn/GSMR/") g<-fread("AF-GCST006414-build37.f.tsv.gz") #读取GWAS数据 head(g) f<-sele...
分析方法: 使用MANOVA对寿命、健康寿命、父母寿命三个不同的GWAS summary文件进行荟萃分析。随后对感兴趣的基因座按照性别和年龄进行分层分析,用GWAS catalog和PhenoScanner查找感兴趣基因的相关表型。使用SMR进行基因表达共定位分析,使用FUMA的Gene2Func进行基因富集分析,使用TwoSampleMR进行孟德尔随机化随机化; ...
九、GWAS wgethttp://www.genome.gov/admin/gwascatalog.txt 十、snp147.txt.gz(该网站包含了Annotation database) wgethttp://hgdownload.soe.ucsc.edu/goldenPath/hg19/database/snp147.txt.gz hg38:http://hgdownload.soe.ucsc.edu/goldenPath/hg38/database/ ...
representing and modeling data in the NHGRI GWAS catalogVJ Carey
BACKGROUNDGenome-wide association studies (GWAS) have identified that a 1M region centromeric to the MYC oncogene on chromosome 8q24.21 harbors at least fi... CC Chung,AW Hsing,E Yeboah,... - 《Prostate》 被引量: 2发表: 2014年 VizieR Online Data Catalog: LVL global optical photometry (Co...
‘lung function’. To determine the known cardiovascular function loci from previous literature, we used the following keywords (case insensitive) for the NHGRI-EBI GWAS Catalog search: ‘arrhythmia’, ‘afib’, ‘atrial fibrillation’, ‘coronary artery disease’, ‘stroke’, ‘heart attack’, ...
Genome-wide association studies (GWAS) have identified thousands of genetic variants associated with human complex traits. However, the genes or functional DNA elements through which these variants exert their effects on the traits are often unknown. We propose a method (called SMR) that integrates ...