Scott Allen Lacadie

Sex-determining 3D regulatory hubs revealed by genome spatial auto-correlation analysis

The paper identifies 3D regulatory hubs involved in sex determination using spatial auto-correlation analysis in mouse embryos.

Sensitive dissection of a genomic regulatory landscape using bulk and targeted single-cell activation

The paper identifies CRISPRa-responsive enhancers and their target genes in a 2 Mb region around PHOX2B using TESLA-seq, revealing both known and novel regulatory relationships.

Integrated annotation and analysis of genomic features reveal new types of functional elements and large-scale epigenetic phenomena in the developing zebrafish

The paper creates a central repository for zebrafish developmental genomics data, identifies new cis-regulatory elements, and compares regulatory elements between zebrafish and mouse.

Single-cell-resolved dynamics of chromatin architecture delineate cell and regulatory states in wildtype and cloche/npas4l mutant zebrafish embryos

The paper uses sci-ATAC-seq and a new tool, ScregSeg, to analyze chromatin dynamics in zebrafish embryos, revealing roles of npas4l/cloche in cell and regulatory states.

FACT sets a barrier for cell fate reprogramming in C. elegans and Human

The paper identifies FACT as a conserved reprogramming barrier in C. elegans and humans that maintains cell identity by modulating chromatin accessibility.

Determinants of Transcription Initiation Directionality in Metazoans

The paper investigates transcription initiation directionality in metazoans, finding species-specific sequence asymmetry and independent initiation events at promoters and enhancers.