Chemoproteomics and Chemical Probes for Target Discovery
Abstract
Chemical probes represent versatile tools to validate disease-modifying targets. However, evaluating the selectivity of chemical probes in complex cellular systems is a major challenge that needs to be addressed to better understand the mode of action of small molecules and the interpretation of their pharmacological effects. Chemoproteomics has emerged as a key technology to characterize the mode of action of pharmacological modulators such as chemical probes and drugs, and these studies have unraveled the cellular targets of many bioactive compounds. Here we review the role of chemical probes for the validation of new therapeutic targets and their characterization by proteome wide affinity- and activity-based chemical proteomics and recently developed label-free technologies.
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Chemoproteomic platforms enable rapid target identification and selectivity profiling of covalent ligands.
“This ‘electrophile-first’ approach is partly facilitated by the development of chemoproteomic platforms that enable rapid target identification and selectivity profiling of covalent ligands14–18.”
From Advances in covalent drug discovery (2022) · cites this paper as [16]
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Hussain, I., Fabrègue, J., Anderes, L., et al. (2012) · Journal of Biological Chemistry · doi:10.1074/jbc.m112.370924 · Cited by 47 · see citing works
Next-Generation Phenotypic Screening
Warchal, S. J., Unciti‐Broceta, A., & Carragher, N. O. (2016) · Future Medicinal Chemistry · doi:10.4155/fmc-2016-0025 · Cited by 46 · see citing works
Kalxdorf, M., Gade, S., Eberl, H. C., & Bantscheff, M. (2017) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m116.063859 · Cited by 45 · see citing works
Probing small molecule–protein interactions: A new perspective for functional proteomics
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Characterization of the Saccharomyces cerevisiae ATP-Interactome using the iTRAQ-SPROX Technique
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Penarete‐Vargas, D. M., Boisson, A., Urbach, S., et al. (2014) · PLoS ONE · doi:10.1371/journal.pone.0113918 · Cited by 36 · see citing works
Anderson, K. E., To, M., Olzmann, J. A., & Nomura, D. K. (2017) · ACS Chemical Biology · doi:10.1021/acschembio.7b00711 · Cited by 35 · see citing works
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Self-citationOgburn, R. N., Jin, L., He, M., & Fitzgerald, M. C. (2017) · Journal of Proteome Research · doi:10.1021/acs.jproteome.7b00442 · Cited by 31 · see citing works
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Advances in covalent drug discovery
Boike, L., Henning, N. J., & Nomura, D. K. (2022) · Nature Reviews Drug Discovery · doi:10.1038/s41573-022-00542-z · Cited by 823 · see citing works
Recent Advances in Selective and Irreversible Covalent Ligand Development and Validation
Zhang, T., Hatcher, J. M., Teng, M., Gray, N. S., & Kostic, M. (2019) · Cell Chemical Biology · doi:10.1016/j.chembiol.2019.09.012 · Cited by 178 · see citing works
Improved Proteomics-Based Drug Mechanism-of-Action Studies Using 16-Plex Isobaric Mass Tags
Zinn, N., Werner, T., Doce, C., Mathieson, T., Boecker, C., Sweetman, G., Fufezan, C., & Bantscheff, M. (2021) · Journal of Proteome Research · doi:10.1021/acs.jproteome.0c00900 · Cited by 49 · see citing works
Lin, Z., Wang, X., Bustin, K. A., Shishikura, K., McKnight, N. R., He, L., Suciu, R. M., Hu, K., Han, X., Ahmadi, M., et al. (2021) · ACS Central Science · doi:10.1021/acscentsci.1c00616 · Cited by 43 · see citing works
- Authors
- Drewes, G., & Knapp, S.
- Affiliations
- GlaxoSmithKline (Germany) (DE)
- Goethe University Frankfurt (DE)
- Corresponding author
- Drewes, Gerard
- Knapp, Stefan
- Venue
- Trends in Biotechnology
- Publisher
- Elsevier BV
- Published
- 2018-12
- Volume
- 36
- Issue
- 12
- Pages
- 1275-1286
- ISSN
- 0167-7799 (ISSN-L)
- OpenAlex
- W2884576320
- Cited by
- 132
- References
- 94
- Citations by year
- 2026: 10 · 2025: 18 · 2024: 16 · 2023: 16 · 2022: 13 · 2021: 16 · 2020: 28 · 2019: 15
- FWCI
- 1.03
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Trends in biotechnology (publishedVersion)
- PubMed (publishedVersion)
- Funders
- German cancer network (DKTK), the DFG, and the SGC
- Topics
- Physical Sciences › Chemistry › Organic Chemistry › Click Chemistry and Applications
- Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
- Physical Sciences › Computer Science › Computational Theory and Mathematics › Computational Drug Discovery Methods
- Keywords
- chemoproteomics, chemical probes, target identification, target validation, label-free quantitative proteomics, mechanism of action, small molecules, drug target selectivity
- MeSH terms
- Pharmacology, Proteome, Proteomics, Drug Discovery
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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