David T. Humphreys

The paper develops a scalable MNase-seq workflow for reproducible nucleosome profiling across multiple cell types and models.

The paper identifies impaired NAD metabolism in the yolk sac as a cause of congenital malformations in mice, with implications for human birth defects.

This study shows aging reduces lung stem cell function and suppresses lung cancer by inducing iron deficiency through the NUPR1-lipocalin-2 pathway.

The paper uses single-cell RNA sequencing to identify distinct B cell and fibroblast populations in stricturing Crohn's disease, highlighting their potential roles in fibrosis.

The paper introduces BOM, a computational model that captures cell-type-specific regulatory information in distal sequences by analyzing TF binding motifs, showing it outperforms deep learning models with fewer parameters.

This study identifies genetic and molecular factors underlying atrial septal defects in mice using QTL mapping and transcriptome analysis, revealing complex networks and non-coding variants involved.

Sierra identifies differential transcript usage from polyA-captured scRNA-seq data, validated against bulk RNA-seq and showing 3UTR shortening in cardiac fibroblasts.

Ularcirc detects and analyzes circular RNAs using a novel method to filter false positives and provides visualization tools for circRNA characterization.