SWI/SNF-dependent genes are defined by their chromatin landscape

• DOI: 10.1016/j.celrep.2024.113855
• Publication Date: 2024-03-01T00:42:44Z
• Authors: Laura Basurto-Cay...; José A. Guerrero-...; Elena Gómez-Marín; Elena Sánchez-Esc...; María Escaño-Maestre; María Ceballos-Ch...; José C. Reyes
• Keywords: SWI/SNF

SWI/SNF complexes are evolutionarily conserved, ATP-dependent chromatin remodeling machines. Here, we characterize the features of SWI/SNF-dependent genes using BRM014, an inhibitor ATPase activity complexes. We find that is required to maintain accessibility and nucleosome occupancy for most enhancers but not promoters. needed expression with low medium levels have promoters (1) accessibility, (2) active histone marks, (3) high H3K4me1/H3K4me3 ratio, (4) nucleosomal phasing, (5) enrichment in TATA-box motifs. These mostly occupied by canonical Brahma-related gene 1/Brahma-associated factor (BAF) complex. surrounded mainly encode signal transduction, developmental, cell identity (with almost no housekeeping genes). Machine-learning models trained different characteristics their surrounding regulatory regions indicate landscape a determinant establishing dependency.