Miri Adler

The paper identifies universal and tissue-specific transcriptional programs in human and mouse tissues using single-cell RNA sequencing and shows how they coordinate function across organs.

ParTIpy scales archetypal analysis for biological trade-offs and integrates with single-cell workflows, enabling task inference in large datasets.

The paper shows that Robo3 expression in spinal commissural neurons is controlled by gene regulatory networks involving incoherent feedforward and feedback loops, which determine midline crossing.

The paper identifies a cold fibrotic network in LUSC TME driven by CAFs and shows its conservation in other CIACs, suggesting therapeutic targets.

The paper models a macrophage-myofibroblast circuit to predict fibrosis types and shows targeting the myofibroblast autocrine loop reduces fibrosis after myocardial infarction.

The paper develops a framework to analyze developmental circuits using single-cell gene expression data from the human intestine, revealing design principles of developmental programs.

The paper develops a computational framework to study division of labor in tissues by analyzing cell interactions and spatial cues using single-cell RNA-seq and spatial transcriptomics data.

The paper identifies a pre-symptomatic extracellular-matrix signature in colitis models and validates it in human subjects, showing its mediation by neutrophils and monocytes.

This study identifies a cell-circuit framework for wound healing and fibrosis, revealing three fibrosis outcomes and parameters that control the transition from healing to fibrosis.