Incorporating genetic similarity of auxiliary samples into eGene identification under the transfer learning framework
Background The term eGene has been applied to define a gene whose expression level is
affected by at least one independent expression quantitative trait locus (eQTL). It is both …
affected by at least one independent expression quantitative trait locus (eQTL). It is both …
Using genomic annotations increases statistical power to detect eGenes
Motivation: Expression quantitative trait loci (eQTLs) are genetic variants that affect gene
expression. In eQTL studies, one important task is to find eGenes or genes whose …
expression. In eQTL studies, one important task is to find eGenes or genes whose …
Applying meta-analysis to genotype-tissue expression data from multiple tissues to identify eQTLs and increase the number of eGenes
Motivation There is recent interest in using gene expression data to contextualize findings
from traditional genome-wide association studies (GWAS). Conditioned on a tissue …
from traditional genome-wide association studies (GWAS). Conditioned on a tissue …
[HTML][HTML] ClipperQTL: ultrafast and powerful eGene identification method
A central task in expression quantitative trait locus (eQTL) analysis is to identify cis-eGenes
(henceforth “eGenes”), ie, genes whose expression levels are regulated by at least one local …
(henceforth “eGenes”), ie, genes whose expression levels are regulated by at least one local …
Pitfalls and opportunities for applying latent variables in single-cell eQTL analyses
Using latent variables in gene expression data can help correct unobserved confounders
and increase statistical power for expression quantitative trait Loci (eQTL) detection. The …
and increase statistical power for expression quantitative trait Loci (eQTL) detection. The …
Pitfalls and opportunities for applying PEER factors in single-cell eQTL analyses
Using latent variables in gene expression data can help correct spurious correlations due to
unobserved confounders and increase statistical power for expression Quantitative Trait …
unobserved confounders and increase statistical power for expression Quantitative Trait …
Cancer-specific expression quantitative loci are affected by expression dysregulation
Expression quantitative trait loci (eQTLs) have been touted as the missing piece that can
bridge the gap between genetic variants and phenotypes. Over the past decade, we have …
bridge the gap between genetic variants and phenotypes. Over the past decade, we have …
Assigning Co-regulated human genes and regulatory gene clusters
Elucidating the role of genetic variation in the regulation of gene expression is key to
understanding the pathobiology of complex diseases which, in consequence, is crucial in …
understanding the pathobiology of complex diseases which, in consequence, is crucial in …
PancanQTL: systematic identification of cis-eQTLs and trans-eQTLs in 33 cancer types
Expression quantitative trait locus (eQTL) analysis, which links variations in gene expression
to genotypes, is essential to understanding gene regulation and to interpreting disease …
to genotypes, is essential to understanding gene regulation and to interpreting disease …
Reverse regression increases power for detecting trans-eQTLs
Trans-acting expression quantitative trait loci (trans-eQTLs) are genetic variants affecting the
expression of distant genes. They account for≥ 70% expression heritability and could …
expression of distant genes. They account for≥ 70% expression heritability and could …