An Integrated Single-Cell and Epigenomic Resource for Comparative Analysis of the Basal Ganglia from BICAN

Collection Type

Static

Keywords

Basal Ganglia single cell epigenomics comparative epigenomics data visualization DNA methylation Chromatin accessibility histone modifications chromatin conformation genome browser

The basal ganglia regulate motor, cognitive, and affective behaviors, and their dysfunction underlies diverse neurological and psychiatric disorders. Comprehensive, accessible multi-omics resources are needed to understand the regulatory mechanisms governing basal ganglia cell types. Here we present an open, interactive web-based platform for exploring single-cell multi-omics datasets from basal ganglia, generated using 10X Multiome, snm3C-seq, and Paired-Tag technologies by the BICAN (NIH BRAIN Initiative Cell Atlas Network) consortium. The platform is available at https://basalganglia.epigenomes.net/ and enables integrated visualization of gene expression, chromatin accessibility, DNA methylation, histone modifications, and chromatin conformation across cell types and human, macaque, marmoset, and mouse species, with direct genome browser support and comparative epigenomic functionality. The deposited files are pseudo-bulk BigWig and BED tracks aggregated at the Subclass and Group levels of the HMBA consensus cell type taxonomy, pooled across donors.

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nemo:col-n6b0x7w

BICAN Basal Ganglia package
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