John T. Lis

The paper compares nascent transcription in primates to identify evolutionary patterns in coding and non-coding transcription, finding that transcription factor binding sites and adaptive substitutions drive species-specific differences.

This study uses PRO-seq to analyze the rapid transcriptional response to celastrol in K562 cells, revealing two waves of transcriptional changes and identifying key transcription factors involved.

The paper outlines the goals and structure of the 4D Nucleome Project, which aims to map the spatial and temporal dynamics of the genome in human and mouse cells.

The paper introduces dREG, a machine-learning method to identify active transcriptional regulatory elements from GRO-seq data, showing strong enrichment for functional marks.