A quantitative metric of pioneer activity reveals that HNF4A has stronger in vivo pioneer activity than FOXA1.

ABSTRACT:

Background

We and others have suggested that pioneer activity - a transcription factor's (TF's) ability to bind and open inaccessible loci - is not a qualitative trait limited to a select class of pioneer TFs. We hypothesize that most TFs display pioneering activity that depends on the TF concentration and the motif content at their target loci.

Results

Here, we present a quantitative in vivo measure of pioneer activity that captures the relative difference in a TF's ability to bind accessible versus inaccessible DNA. The metric is based on experiments that use CUT&Tag to measure the binding of doxycycline-inducible TFs. For each location across the genome, we determine the concentration of doxycycline required for a TF to reach half-maximal occupancy; lower concentrations r

SUBMITTER: Hansen JL 

PROVIDER: S-EPMC9575205 | biostudies-literature | 2022 Oct

REPOSITORIES: biostudies-literature