John M. Greally

MAD-seq detects low-level mosaic chromosomal aneuploidy using a new sequencing assay and analysis method, revealing previously unrecognized aneuploidy in public datasets.

This study investigates how Toxoplasma gondii infection alters host transcriptional regulation by redistributing AP-1 transcription factor binding, leading to changes in chromatin accessibility and gene expression.

The paper identifies RNA:DNA hybrids in the human genome, showing they are purine-rich, associated with hypomethylation and heterochromatin domains, and bound by ILF2/ILF3 transcription factors.

The paper analyzes DNA methylation variability in purified human CD34+ HSPCs and finds increased variability at candidate enhancers and genes involved in lineage commitment, suggesting meta-epigenomic approaches can reveal cell subtype heterogeneity.