Jacob E. Greene

N3-kethoxal labeling of single-stranded DNA within CUT&Tag maps Pol II transcription bubbles; bubble density tracks nascent transcription, shifts with transcription inhibitors and TFIIS loss, and peaks at histone genes.

The paper tracks H3K27 methylation dynamics in human cells using CUT&Tag, showing that tri-methylation is maintained stepwise after DNA replication and di-methylation occurs at inactive genes post-replication.

The paper identifies RNA Polymerase II hypertranscription at histone genes in cancer FFPE samples, linking it to tumor progression and aneuploidy.