Transcriptomic profiling of thalamic tissue from APOE4-carrying 5xFAD mice with or without Lilrb4a deficiency

The microglial immune receptor Lilrb4a is strongly induced in Alzheimer’s disease (AD) mouse models and has been proposed to function as a receptor for APOE4. To define the molecular programs associated with Lilrb4a deficiency in an APOE4-dependent AD context, we conducted bulk RNA-seq on thalamic tissue from 5xFAD mice carrying human APOE4 (5EL) and Lilrb4a-deficient 5EL mice (5ELKO). Transcriptomic analysis identified significant changes in inflammatory and metabolic pathways, with prominent enrichment of PPAR signaling and broader lipid/energy metabolic programs in Lilrb4a-deficient mice. This dataset provides a transcriptomic resource for investigating Lilrb4a-dependent molecular pathways in APOE4-associated AD-like pathology.