ArticlebioRxiv : the preprint server for biology2026
Genome-Wide Annotation of Promoter-Enhancer Interactions via Chromatin Loops in the Hybrid Rat Diversity Panel.
Article in bioRxiv : the preprint server for biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Despite the prominence of laboratory rats in behavioral neuroscience and complex trait genetics, a significant gap exists in the functional rat genomics database that explains the regulation of gene expression at the genome level. To address this, we analyzed genome-wide Hi-C data from the frontal cortex of ten strains in the Hybrid Rat Diversity Panel. While originally generated to improve the rat genome assembly, these data provided a unique opportunity to characterize the regulatory landscape of the adult rat brain. We identified an average of 5,899 ± 1,997 (STD) loops per sample and integrated these with over 3 million curated CTCF binding sites, which serve as architectural anchors for chromatin loops. Our multi-stage filtering workflow identified 15,085 unique, high-confidence regulatory interactions throughout the genome. As a validation of our approach, we observed that genes with the highest loop counts, including
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