Devan Phillips

Dictionary of human intestinal organoid responses to secreted niche factors at single cell resolution

The paper builds a dictionary of human intestinal organoid responses to 81 secreted niche factors using scRNA-seq, mapping perturbations and identifying cell type-specific pathways in an IBD context.

A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients

This study creates a single-nucleus and spatial transcriptomic atlas of the COVID-19 liver, revealing cellular and functional disruptions associated with organ damage.

Systematically characterizing the roles of E3-ligase family members in inflammatory responses with massively parallel Perturb-seq

The paper uses Perturb-seq to systematically study 1,130 E3 ligases and their roles in inflammatory responses in dendritic cells, revealing co-functional modules and genetic interactions.

Cell-subtype specific effects of genetic variation in the aging and Alzheimer cortex

The paper identifies cell-type and cell-subtype specific eQTLs in aging human cortex, revealing variant effects on gene expression and disease associations.

Simultaneous single cell measurements of intranuclear proteins and gene expression

The paper introduces inCITE-seq, a method for simultaneous measurement of intranuclear proteins and gene expression in single cells, and demonstrates its application in analyzing neuronal activity in mouse brain tissue.

A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2

This study creates a single-cell and spatial atlas of autopsy tissues from COVID-19 patients, revealing altered cellular responses and potential therapeutic targets.

Single-nucleus and spatial transcriptomics of archival pancreatic cancer reveals multi-compartment reprogramming after neoadjuvant treatment

This study uses single-nucleus and spatial transcriptomics to analyze pancreatic cancer before and after neoadjuvant treatment, revealing changes in cell states and immune infiltration that may inform therapy.