Ontology highlight
ABSTRACT:
SUBMITTER: Kalita CA
PROVIDER: S-EPMC9264694 | biostudies-literature | 2022 Jul
REPOSITORIES: biostudies-literature
Kalita Cynthia A CA Gusev Alexander A
Genome biology 20220708 1
Here, we propose DeCAF (DEconvoluted cell type Allele specific Function), a new method to identify cell-fraction (cf) QTLs in tumors by leveraging both allelic and total expression information. Applying DeCAF to RNA-seq data from TCGA, we identify 3664 genes with cfQTLs (at 10% FDR) in 14 cell types, a 5.63× increase in discovery over conventional interaction-eQTL mapping. cfQTLs replicated in external cell-type-specific eQTL data are more enriched for cancer risk than conventional eQTLs. Our ne ...[more]