Aybuge Altay

Abstract Developmental genes are controlled by an ensemble of cis-acting regulatory elements (REs), which in turn respond to multiple trans-acting transcription factors (TFs). Understanding how a cis-regulatory landscape integrates information from many dynamically expressed TFs has remained a challenge. Here we develop a combined CRISPR screening approach using endogenous RNA and RE reporters as readouts.

ABSTRACT Cells whose accessibility landscape has been profiled with scATAC-seq cannot readily be annotated to a particular cell type. In fact, annotating cell-types in scATAC-seq data is a challenging task since, unlike in scRNA-seq data, we lack knowledge of “marker regions” which could be used for cell-type annotation. Current annotation methods typically translate accessibility to expression space and rely on gene expression patterns.

Correction to: Nature Communications https://doi.org/10.1038/s41467-023-37585-8, published online 11 April 2023 In the Acknowledgements section of this article, one of the funding sources was incorrect.