Accumulating 3D genomic maps suggest that whole genome is comprised of large topological domains and these domains are further divided into sub-domains that involve the extensive DNA loops among the regulatory elements such as enhancer, promoter and boundaries thus these subdomains are of varying transcriptional status and exhibit differential histone modifications. Strikingly, most of those domains seem invariant between cell types and conserved between mouse and human in syntenic regions, implying important constraints on chromosomal architecture yet, they allow spatial and temporal changes in gene expression.

While there remains a diversity of opinion, the bulk of data suggests dynamic interactions between enhancers that transcribe ncRNA (eRNAs) and their cognate gene promoters (distributed in a subdomain or over several topological association domains; TADs) are critical determinants of chromatin dynamics and transcriptional outcome. However, the architectural basis for gene activation vs. repression, the signatures and molecular mechanisms of these transcriptional enhancers and corresponding eRNAs remain crucial, unsolved questions. Thus, we are inetrested in understanding the dynamic link between these ncRNAs, regulatory elements and chromatin architecture which leads to gene expression in spacio-temporal manner.