Evidence map›Paper›PMID 41251312›Full record

ArticleACS chemical biology2025

Enrichment-Free, Targeted Covalent Drug Discovery in Live Cells.

Kevin D Dong, Qing Yu, Ka Yang, Bertrand J Wong, Hong Yue, Sipei Fu, Rebecca L Whitehouse, Eric S Fischer, Steven P Gygi

Abstract read
In one paragraph

Article in ACS chemical biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

3 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

Kevin D DongDepartment of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, United States.
Qing YuDepartment of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, United States.ORCID 0000-0003-0468-5353
Ka YangDepartment of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, United States.ORCID 0000-0001-8937-7397
Bertrand J WongDepartment of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, United States.
Hong YueDepartment of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, United States.
Sipei FuDepartment of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, United States.
Rebecca L WhitehouseDepartment of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, United States.
Eric S FischerDepartment of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, United States.
Steven P GygiDepartment of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, United States.ORCID 0000-0001-7626-0034

Funding

New Sample Multiplexing Technologies to Identify Chemical Probes and Illuminate Ubiquitin BiologyR01GM067945 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI GYGI, STEVEN P · 2003 to 2024
$10.5M
Sample Multiplexing as a Key Enabling Technology for Quantitative ProteomicsR35GM158136 · NIGMS · HARVARD MEDICAL SCHOOL · PI GYGI, STEVEN P · 2025 to 2025
$2.5M
New Proteomics Approaches to Study the Full Human Kinome, Inhibitor Resistance, and Kinase DegradersK22CA282268 · NCI · UNIV OF MASSACHUSETTS MED SCH WORCESTER · PI Qing Yu · 2024 to 2026
$636k
NCI NIH HHS K22 CA282268NIGMS NIH HHS R01 GM067945NIGMS NIH HHS R35 GM158136
6 · The paper itself

Abstract

Live-cell activity-based protein profiling (ABPP) with mass spectrometry enables the proteome-wide quantification of compound reactivity, yet resulting datasets often suffer from low data completeness for high-priority targets and do not give users the option to measure compound-induced protein changes within the same screening assay. To address these limitations, we developed CysDig, an enrichment-free chemoproteomics platform for the targeted covalent drug discovery in live cells. Using the CysDig platform, we screened 288 cysteine-reactive electrophiles against 300 functionally annotated cysteine sites. From this screen, we identified covalent binders that liganded dozens of sites and identified multiple instances of acute compound-induced protein degradation of ACAT1. We validated a molecule that engaged with the active site of HECT E3 ligase HUWE1 and showed that chemical inhibition stabilized known substrates. Together, these findings establish CysDig as a powerful, targeted platform for live-cell covalent drug screening, expanding the current repertoire of available approaches for ligand discovery in live cells.

Indexed as

Drug DiscoveryProteomicsCysteineHEK293 CellsHumansLigandsMass SpectrometryUbiquitin-Protein LigasesCysteineLigandsUbiquitin-Protein Ligases

Identifiers

PMID41251312
PMCPMC13162157

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.