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TOPICAL COLLECTIONS

Experimental Methods for Targeted Protein Degradation in Antiviral Research
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Guest Editor

Antara Chakravarty

Antara Chakravarty

Department of Microbiology and Immunology, Stanford University School of Medicine

Dr. Antara Chakravarty is a postdoctoral research scholar in Dr. Priscilla Yang’s laboratory in the Department of Microbiology and Immunology at Stanford School of Medicine. She received her PhD in molecular virology from the University of California, Riverside, where her doctoral training in Dr. A. L. N. Rao’s laboratory established mechanistic links between viral capsid dynamics, genome organization, and pathogenicity in multipartite RNA viruses. Her research integrates molecular virology, chemical biology, and cell-based assays to interrogate viral protein function and to develop antiviral strategies based on targeted protein degradation. Her work has helped establish experimental frameworks for evaluating the mechanism and differentiated pharmacological behavior of small-molecule degraders targeting viral structural proteins, informing current understanding of targeted protein degradation as an antiviral approach. Her research has been supported by competitive fellowships and recognized with multiple research and travel awards.

Collection Overview

Targeted protein degradation (TPD) has emerged as a versatile antiviral approach by enabling the selective elimination of viral proteins and host factors required for viral replication. Unlike classical inhibition, degrader-based approaches act through event-driven removal of proteins, enabling interrogation of viral and host dependency pathways that are otherwise difficult to drug and offering routes to address resistance and target redundancy. Recent proof-of-concept studies illustrate that antiviral activity can be directly coupled to measurable intracellular degradation.


This Topical Collection aims to provide the research community with reproducible, visualized experimental methods that enable rigorous application of TPD in antiviral systems. The collection will highlight experimentally grounded workflows that directly demonstrate target engagement and protein degradation, and that connect these molecular events to antiviral-relevant cellular or infection phenotypes. Emphasis will be placed on methods that are transferable across laboratories, including assays for degrader-induced ternary complex formation, quantitative degradation kinetics and recovery, microscopy-based visualization of protein loss or relocalization, and functional infection-coupled readouts.


By curating and standardizing these approaches across diverse viral models and degrader modalities, this collection will lower technical barriers, improve reproducibility, and accelerate adoption of targeted protein degradation as a practical and mechanistically informative toolkit for antiviral research.

Articles

A Time-Resolved FRET Activity Assay to Distinguish Enzymatic Inhibition from PROTAC-Mediated Degradation of SARS-CoV-2 M<sup>pro</sup>

A Time-Resolved FRET Activity Assay to Distinguish Enzymatic Inhibition from PROTAC-Mediated Degradation of SARS-CoV-2 Mpro

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2026

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