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

Genome biology · Mar 14, 2025Peer-reviewedGenomics

Impact of variants and vaccination on nasal immunity across three waves of SARS-CoV-2

Jaclyn M. L. Walsh, Vincent N. Miao, Anna H. Owings, Ying Tang, Joshua D. Bromley, Samuel W. Kazer, Kyle Kimler, Chelsea Asare, Carly G.K. Ziegler, Samira Ibrahim, Tasneem Jivanjee, Micayla George, Andrew W. Navia, Riley S. Drake, Adam Parker, , José Ordovás-Montañés

This study examines how SARS-CoV-2 variants and vaccination affect nasal immunity across three waves, identifying changes in cellular states and immune responses.

Nature Immunology · Jan 20, 2025Peer-reviewedImmunology

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

Toni Marie Delorey, Carly G.K. Ziegler, Graham Heimberg, Rachelly Normand, Yiming Yang, Åsa Segerstolpe, Domenic Abbondanza, Stephen J. Fleming, Ayshwarya Subramanian, Daniel T. Montoro, Karthik A. Jagadeesh, Kushal K. Dey, Pritha Sen, Michal Slyper, Yered H. Pita-Juárez, , Alexandra–Chloé Villani

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

bioRxiv · Feb 25, 2021 · PreprintGenomics

Spatially-Resolved Live Cell Tagging and Isolation Using Protected Photoactivatable Cell Dyes

Alex S. Genshaft, Carly G.K. Ziegler, Constantine N. Tzouanas, Benjamin E. Mead, Alex M. Jaeger, Andrew W. Navia, Ryan P. King, Tyler Jacks, Jeffrey F. Van Humbeck, Alex K. Shalek

The paper introduces a method to spatially label and isolate cells using photoactivatable dyes, demonstrating its application in organoids and tissue sections to study spatial gene expression and cell behavior.

bioRxiv · Feb 28, 2020 · PreprintSystems Biology