Noncoding regulatory elements in the human genome can control gene expression through distinct mechanisms, including acting as enhancers, silencers, or topological elements. However, we lack tools to identify all such classes systematically and quantify their effects on gene expression in an endogenous genomic context....
X. Cai, Michael T. Montgomery, Masahiro Nagano et al.· bioRxiv· 0 citations
CycloCross is introduced, an adversarial method based on the CycleGAN architecture, designed to translate scRNA-seq data between species without requiring a priori gene correspondences, and generates biologically plausible samples even with limited data, outperforming traditional generative models.
This work generated deep Micro-C maps across human erythropoiesis and identified erythroid cis-regulatory elements that function as “matchmakers” by strengthening loops between neighboring elements that are linked to the expression of key erythropoiesis genes.
The rules governing promoter competition are uncovered, its impact on tuning gene expression levels and genome evolution is highlighted, and it is suggested that transcriptional units producing transcripts of sufficient level and length can mediate insulation independently of CTCF and cohesin.
