Lude Franke

Jan 22, 2024 | genomebiology.biomedcentral.com | Martijn Vochteloo |Patrick Deelen |Ellen A. Tsai |Heiko Runz |Sergio Andreu-Sánchez |Jingyuan Fu | +4 more

PICALO is an EM-based algorithm for the identification of known and unknown contexts that influence the regulatory effect of genetic variants on gene expression. PICALO takes as input a set of eQTLs and their corresponding expression and genotype data, as well as a set of starting positions (e.g., potential context components). Optional arguments allow for the correction of technical covariates both with and without an interaction term.

Mar 7, 2023 | nature.com | Hongyu Zhao |Urmo Võsa |Lude Franke |Alexis Battle |Alexander Teumer |Terho Lehtimäki | +2 more

AbstractMost existing TWAS tools require individual-level eQTL reference data and thus are not applicable to summary-level reference eQTL datasets. The development of TWAS methods that can harness summary-level reference data is valuable to enable TWAS in broader settings and enhance power due to increased reference sample size.