Francesca Luca

circuitSNPs predicts the functional effects of genetic variants on chromatin accessibility using a neural network that models regulatory modules from DNase-seq footprints.

The paper shows environmental changes cause widespread shifts in RNA processing across multiple cell types and identifies trans factor regulation of these changes.

The paper develops QuASAR-MPRA to analyze allele-specific effects in MPRA data, finding 602 SNPs with significant allele-specific regulatory function in LCLs.

The paper introduces a Bayesian framework to integrate molecular QTL data into genetic association analysis, assessing enrichment and colocalization of genetic variants.

This study identifies gene expression changes and host SNPs influenced by the gut microbiome in human cells, linking them to microbiome-related diseases.

This study shows that bacterial infection rapidly alters DNA methylation in human dendritic cells, affecting enhancer elements and gene expression related to immune responses.