Michelle T. Paulsen

Isoform and pathway-specific post-transcriptional RNA processing in human cells

The paper profiles RNA dynamics in 16 human cell lines using Bru-seq and BruChase-seq, showing gene and pathway-specific RNA turnover and isoform regulation.

Characterizing nascent transcription patterns of PROMPTs, eRNAs, and readthrough transcripts in the ENCODE4 deeply profiled cell lines

The paper identifies nascent transcription patterns of PROMPTs, eRNAs, and readthrough transcripts in 16 human cell lines using Bru-seq and finds they are regulated by sequence and chromatin features, suggesting they are functionally important.

BRD4-mediated epigenetic regulation of endoplasmic reticulum-mitochondria contact sites is governed by the mitochondrial complex III

The paper identifies fedratinib as a drug that increases endoplasmic reticulum-mitochondria contact sites by inhibiting BRD4, revealing a novel epigenetic pathway linking ERMCS to cellular metabolism.

Myotubularin-related phosphatase 5 is a critical determinant of autophagy in neurons

This study identifies MTMR5 as a neuron-specific autophagy suppressor, showing its role in limiting autophagy and its potential as a therapeutic target for neurodegenerative diseases.

Dissecting regulatory pathways for transcription recovery following DNA damage reveals a non-canonical function of the histone chaperone HIRA

The paper identifies a non-canonical role of HIRA in transcription restart after DNA damage, independent of H3.3 deposition, by stabilizing UBN2 and reducing ATF3 expression.

Principles of mRNA control by human PUM proteins elucidated from multi-modal experiments and integrative data analysis

The paper identifies how human PUM proteins regulate gene expression by RNA stability and develops a rulebook to predict functional PREs using machine learning.

Identification of cis elements for spatio-temporal control of DNA replication

The paper identifies cis-regulatory elements (ERCEs) that control domain-wide replication timing, chromatin compartmentalization, and transcription in mouse embryonic stem cells.