In some cases, an eQTL can affect expression of numerous genes throughout the genome. This thesis describes methods for dissection and fine-mapping of such trans-eQTL hotspots.Jianan TianDissertations & Theses - Gradworks
e The proportion of eQTLs (y-axis) with chromatin states using fine mapping eVariants, top significant eVariants and total eVariants. f Distribution of cis-H2. The solid line corresponds to all tested genes, while the dashed lines are cis-heritable genes. g Manhattan plot of TWAS between ...
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1.本发明属于基因组数据处理技术领域,具体涉及基于多变量高斯分布的缺失eqtl统计量推断方法。背景技术:2.随着eqtl总结数据(summary data)不断涌现在公共平台上,如gtex、ukbec、eqtlgen、sceqtlgen等,其已经被广泛应用于多种生物信息学分析中,如整合分析、gwas精细比对(fine mapping)、孟德尔随机化预测疾病基因、构建eqtl...
如下图,通常GWAS里我们选择P-value最显著的那个SNP,但不代表它就是causal,也不影响我们使用它 把这个leading SNP的周围的signal取出来,通常是个peak,可以确定这个signal到底与哪个gene有causal effect eQTL是用来找causal gene的,fine mapping才是根据functional的数据来找causal SNP的!!!【确定你是想找上游还是下游】...
如下图,通常GWAS里我们选择P-value最显著的那个SNP,但不代表它就是causal,也不影响我们使用它 把这个leading SNP的周围的signal取出来,通常是个peak,可以确定这个signal到底与哪个gene有causal effect eQTL是用来找causal gene的,fine mapping才是根据functional的数据来找causal SNP的!!!【确定你是想找上游还是下游】...
23followers Hinxton, UK and Tartu, Estonia http://www.ebi.ac.uk/eqtl Overview Repositories13 Projects Packages People3 More PinnedLoading qtlmapqtlmapPublic Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue ...
CASE is an R package designed for multi-trait fine-mapping analysis, with a particular focus on single-cell eQTL fine-mapping.1. InstallationCASE can be installed from the Github Repo.# Install the devtools package if you haven't already # install.packages("devtools") devtools::install_github...
Sanderford, Sudhir Kumar, Greg Gibson (2020) TreeMap: A Structured Approach to Fine Mapping of eQTL Variants. Bioinformatics 37(8):1125-1134 https://doi.org/10.1093/bioinformatics/btaa927 Contributors Li Liu developed the algorithm of TreeMap. Pramod Chandrashekar implemented tree-guided group ...