Highlights

Publications

*denotes equal contribution, †denotes co-corresponding authors

Manuscripts at Rockefeller University (2021 – Present)

  1. Kojima, H.;* Wayne, C.;* Chen, T.-J.;* Patterson, L. F. S.;* Sanford, H.;*  Lin, N.; Schoenfeld, J.; Zhang, B.; Rahman, J.; Zhang, T. L.; Ropek, N.; Roberts, C.; Ai, Y.; Menon, K.; Lyu, J.; Abdel-Wahab, O.; Vardhana, S. A.;† Vinogradova, E. V.† “A post-translational regulatory map of chronic antigen-driven human T cell dysfunction” Submitted 2025.
  2. Olsen, L.; Botella, J.; Barrows, D.; Romero, E.; Baird, K.; Katayama, M.; Kilic, E.; Peralta, C.; Sanford, H.; Farrell, L.; Axelrod, C.L.; Plucińska, K.; Walker, J.; Yan, L.; Fredrickson, K.; Pourquie, O.; Robbins, J.M.; Vinogradova, E.V.; Kirwan, J.P.;  Zierath, J.R.; Krook, A.; Gerszten, R.E.; Bishop, D.J.; Cohen, P. “Exercise intensity modulates the human plasma secretome and interorgan communication” bioRxiv 2025, 2025.10.22.683699.
  3. Stuart, A.J.; Takai, K.K.; Gabbasova, R.R.; Sanford, H.; Vinogradova, E.V.; de Lange, T. “Attenuation of ATM signaling by ROS delays replicative senescence at physiological oxygen” bioRxiv 2024, 2024.06.24.600514; Mol. Cell 2025, 85, 1-11.
  4. Hsu, K-L; Schumann, B.; Sletten, E.; Vinogradova, E.; Zou, P. “Voices: Challenges and opportunities for bioorthogonal chemistry” Cell Chem Biol 2024, 31, 380-382.
  5. Scott, K. A.;* Kojima, H.;* Ropek, N.;* Warren, C. D.;* Zhang, T. L.; Hogg, S. J.; Webster, C.; Zhang, X.; Rahman, J.; Melillo, B.; Cravatt, B. F.; Lyu, J.; Abdel-Wahab, O.; Vinogradova, E. V. “Covalent Targeting of Splicing in T cells“ bioRxiv 2023, 572199; Cell Chem Biol 2025, 32, 1-18;
  6. Liu, Y.; Liu, S.; Tomar, A.; Yen, F. S.; Unlu, G.; Ropek, N.; Weber, R. A.; Wang, Y.; Khan, A.; Gad, M.; Peng, J.; Terzi, E.; Alwaseem, H.; Pagano, A. E.; Heissel, S.; Molina, H.; Allwein, B.; Kenny, T. C.; Possemato, R. L.; Zhao, L.; Hite, R. K.; Vinogradova, E. V.; Mansy, S. S.; Birsoy, K. “Autoregulatory control of mitochondrial glutathione homeostasis” Science, 2023, doi: 10.1126/science.adf4154
  7. Ramsey, J. R.; Shelton, P. M. M.; Heiss, T. K.; Olinares, P. D. B.; Vostal, L. E.; Soileau, H.; Grasso, M.; Warrington, S.; Adaniya, S.; Miller, M.; Sun, S.; Huggins, D. J.; Myers, R. W.; Chait, B. T.; Vinogradova, E. V.;† Kapoor, T. M.† “Using a function-first „scout fragment“-based approach to develop covalent inhibitors of conformationally dynamic helicase mechanoenzymes.” J. Am Chem. Soc. 2023, doi: 10.1021/jacs.3c10581; bioRxiv 2023, 559391. †Co-corresponding authors.
  8. Darabedian, N.; Ji, W.; Fan, M.; Lin, S.; Seo, H.-S.; Vinogradova, E. V.; Yaron, T. M.; Mills, E. L.; Xiao, H.; Senkane, K.; Huntsman, E. M.; Johnson, J. L.; Che, J.; Cantley, L. C.; Cravatt, B. F.; Dhe-Paganon, S.; Stegmaier, K.; Zhang, T.; Gray, N. S.; Chouchani, E. T. “Depletion of creatine phosphagen energetics with a covalent creatine kinase inhibitor” Nat. Chem. Biol. 2023, 19, 815–824.
  9. Scott, K. A.;* Zhang, T. L.;* Xi, S. Y.;* Ngo, B.; Vinogradova, E. V. “Protein State-Dependent Chemical Biology” Israel J. Chem. 2023, e202200101.
  10. Scott, K. A.; Ropek, N.; Melillo, B.; Schreiber, S. L.; Cravatt, B. F.; Vinogradova, E. V. “Stereochemical Diversity as a Source of Discovery in Chemical Biology.” Curr. Res. Chem. Biol. 2022, 2, 100028.
  11. Feldman, H. C.; Merlini, E.; Guijas, C.; DeMeester, K. E.; Njomen, E.; Kozina, E. M.; Yokoyama, M.; Vinogradova, E.; Reardon, H. T.; Melillo, B.; Schreiber, S. L.; Loreto, A.; Blankman, J. L.; Cravatt, B. F. “Selective inhibitors of SARM1 targeting an allosteric cysteine in the autoregulatory ARM domain” Proc. Natl. Acad. Sci. 2022, 119, e2208457119.
  12. Tao, Y.; † Remillard, D.; Vinogradova, E.; Yokoyama, M.; Banchenko, S.; Schwefel, D.; Melillo, B.; Schreiber, S.; Zhang, X; † Cravatt, B. F.†“Targeted protein degradation by electrophilic PROTACs that stereoselectively and site-specifically engage DCAF1” J. Am. Chem. Soc., 2022, 144, 18688–18699.
  13. Vinogradova, E. V.;† Cravatt., B. F.† “Multiplexed Proteomic Profiling of Cysteine Reactivity and Ligandability in Human T cells” STAR Protocols 2021, 2, 100458.
  14. Kuljanin, M.; Mitchell, D. C., Schweppe, D. K.; Gikandi, A. S., Nusinow, D. P., Bulloch, N. J.; Vinogradova, E. V.; Wilson, D. L.; Kool, E. T.; Mancias, J. D.; Cravatt., B. F.; Gygi, S. P. “Reimagining high-throughput profiling of reactive cysteines for cell-based screening of large electrophile libraries.” Nat. Biotech. 2021, 39, 630–641.

Manuscripts prior to Rockefeller University appointment (2006–2020)

  1. Dickson, P.; Abegg, D.; Vinogradova, E. V.; Takaya, J.; An, H.; Simanski, S.; Cravatt, B. F.; Adibekian, A.; Kodadek, T. “Physical and Functional Analysis of the Putative Rpn13 Inhibitor RA190.” Cell Chem. Biol. 2020, 27, 1371–1382.
  2. Vinogradova, E. V.;† Zhang, X.; Remillard, D.; Lazar, D. C.;  Suciu, R. M.; Wang, Y.; Bianco, G.; Yamashita, Y.; Crowley, V. M.; Schafroth, M. A.; Yokoyama, M.; Konrad, D. B.; Lum, K. M.; Simon, G. M.; Kemper, E. K.; Lazear, M. R.; Yin, S.; Blewett, M. M.; Dix, M. M.; Nguyen, N.; Shokhirev, M. N.; Chin, E. N.; Lairson, L. L.; Melillo, B.; Schreiber, S. L.; Forli, S.; Teijaro, J. R.;† Cravatt, B. F.† “An Activity-Guided Map of Electrophile-Cysteine Interactions in Primary Human Immune Cells.” Cell 2020, 182, 1–18.
  3. Zambaldo, C.;*,† Vinogradova, E. V.;*,† Qi, X.; Iaconelli, J.; Suciu, R. M.; Koh, M.; Senkane, K.; Chadwick, S. R.; Sanchez, B. B.; Chen, J. S.; Chatterjee, A. K.; Liu, P.; Schultz, P. G.; Cravatt, B. F.; Bollong, M. J.† “2-Sulfonyl Pyridines as Tunable, Cysteine-Reactive Electrophiles.” J. Am. Chem. Soc. 2020, 142,  8972–8979.
  4. Yamashita, Y.; Vinogradova, E. V.; Zhang, X.; Suciu, R. M.; Cravatt, B. F. “A chemical proteomic probe for the mitochondrial pyruvate carrier complex.” Angew. Chem. Int. Ed. 2020, 59, 3896–3899.
  5. Senkane, K.; Vinogradova, E. V.;† Suciu, R. M.; Crowley, V. M.; Zaro, B. W.; Bradshaw, J. M.; Brameld, K. A.; Cravatt, B. F.† “The Proteome-Wide Potential for Reversible Covalency at Cysteine.” Angew. Chem., Int. Ed. 2019, 58, 11385–11389.
  6. Zaro, B. W.;* Vinogradova, E. V.;* Lazar, D. C.;* Blewett, M. M.;* Suciu, R. M.; Takaya, J.; Studer, S.; de la Torre, J. C.; Casanova, J.-L.; Cravatt, B. F.; Teijaro, J. R. “Dimethyl Fumarate Disrupts Human Innate Immune Signaling by Targeting the IRAK4−MyD88 Complex.” J. Immunol. 2019, 202(9), 2737–2746.
  7. Yang, K.; Hong, L.; Vinogradova, E. V.; Suciu, R.; Kovalenko, I.; Grimley, E.; Karnak, D.; Morgan, C. A.; Chtcherbinine, M.; Buchman, C.; Huddle, B.; Barraza, S.; Morgan, M.; Yoon, E.; Lombard, D. B.; Bild, A.; Mehta, G.; Romero, I.; Chiang, C.-Y.; Landen, C.; Cravatt, B. P.; Hurley, T. D.; Larsen, S. D.; Buckanovich, R. J. “A Novel Pan-ALDH1A Inhibitor Induces Necroptosis in Ovarian Cancer Stem-Like Cells.” Cell Reports 2019,26,3061–3075.
  8. Zhang, C.; Vinogradova, E. V.; Spokoyny, A. M.; Buchwald, S. L.; Pentelute, B. L. “Arylation Chemistry for Bioconjugation.” Angew. Chem., Int. Ed. 2019, 58, 4810–4839.
  9. Lee, H. Y.; Suciu, R. M.; Horning, B. D.; Vinogradova, E. V.; Ulanovskaya, O. A.; Cravatt, B. F. “Covalent Inhibitors of Nicotinamide N-Methyltransferase (NNMT) Provide Evidence for Target Engagement Challenges In Situ” Bioorg. Med. Chem. Lett. 2018, 28(16), 2682–2687. 
  10. Gao, D.-W.; Vinogradova, E. V.; Nimmagadda, S. K.; Medina, J. M.; Xiao, Y.; Suciu, R. M.; Cravatt, B. F., Engle, K. M. “Direct Access to Versatile Electrophiles via Catalytic Oxidative Cyanation of Alkenes.” J. Am. Chem. Soc. 2018, 140(26), 8069–8073.
  11. Bar-Peled, L.; Kemper, E. K.; Suciu, R. M.; Vinogradova, E. V.; Backus, K. M.; Horning, B. D.; Paul, T. A.; Ichu, T.-A.; Svensson, R. U.; Olucha, J.; Chang, M. W.; Kok, B. P.; Zhu, Z.; Ihle, N. T.; Dix, M. M.; Jiang, P.; Hayward, M. M.; Saez, E.; Shaw, R. J.; Cravatt, B. F. “Chemical Proteomics Identifies Druggable Vulnerabilities in a Genetically Defined Cancer.” Cell, 2017, 171, 696–709.
  12. Vinogradova, E. V. “Organometallic Chemical Biology: an Organometallic Approach to Bioconjugation.” Pure Appl. Chem. 2017, 89, 1619–1640 (Invited review).
  13. Rojas, A. J.; Zhang, C.; Vinogradova, E. V.; Buchwald, N. H.; Reilly, J.; Pentelute, B. L.; Buchwald, S. L. “Divergent Unprotected Peptide Macrocyclisation by Palladium-Mediated Cysteine Arylation.” Chem. Sci. 2017, 8, 4257–4263.
  14. Vinogradova, E. V.;* Zhang, C.;* Spokoyny, A. M.; Pentelute, B. L.; Buchwald, S. L. “Organometallic Palladium Complexes for Cysteine Arylation.” Nature, 2015, 526, 687–691.
  15. Park N. H.; Vinogradova, E. V.; Surry, D. S.; Buchwald, S. L. “Design of New Ligands for the Palladium-Catalyzed Arylation of a-Branched Secondary Amines.” Angew. Chem., Int. Ed. 2015, 54, 8259–8262.
  16. Vinogradova, E. V.; Müller, P.; Buchwald, S. L. “Structural Reevaluation of the Electrophilic Hypervalent Iodine Reagent for Trifluoromethylthiolation Supported by the Crystalline-Sponge Method for X-ray Analysis.” Angew. Chem., Int. Ed. 2014,53, 3125–3128.  
  17. Vinogradova, E. V.; Park, N. H.; Fors, B. P.; Buchwald, S. L. “Palladium-Catalyzed Synthesis of N-Aryl Carbamates.” Org. Lett. 2013, 15, 1394–1397.
  18. Vinogradova, E. V.; Enakieva, Y. Y.; Nefedov, S. E.; Birin, K. P.; Tsivadze, A. Y.; Gorbunova, Y. G.; Bessmertnykh Lemeune, A. G.; Stern, C.; Guilard, R. “Synthesis and Self-Organization of Zinc-b-Dialkoxyphosphorylporphyrins in Solid State and in Solution.” Chem. Eur. J. 2012, 18, 15092–15104.
  19. Vinogradova, E. V.; Fors, B. P.; Buchwald, S. L. “Palladium-Catalyzed Cross-Coupling of Aryl Chlorides and Triflates with Sodium Cyanate: A Practical Synthesis of Unsymmetrical Ureas.” J. Am. Chem. Soc. 2012, 134, 11132–11135.
  20. Niedermann, K.; Frueh, N.; Vinogradova, E.; et al. “A Ritter-Type Reaction: Direct Electrophilic Trifluoromethylation at Nitrogen Atoms Using Hypervalent Iodine Reagents.” Angew. Chem., Int. Ed. 2011, 50, 1059–1063.
  21. Wiehn, M. S.; Vinogradova, E. V.; Togni, A. “Electrophilic Trifluoromethylation of Arenes and N-heteroarenes Using Hypervalent Iodine Reagents.” J. Fluor. Chem. 2010, 131(9), 951–957.
  22. Gorodetskaya, I. A.; Gorodetsky, A. A.; Vinogradova, E. V.; Grubbs, R. H. “Functionalized Hyperbranched Polymers via Olefin Metathesis.” Macromolecules 2009, 42 (8), 2895–2898.
  23. Vinogradova, E. V.; Enakieva, Y. Y.; Gorbunova, Y. G.; Tsivadze, A. Y. “Synthesis of Meso-substituted Porphyrins as Precursors in Creating Highly Ordered Electroluminescent Polymer Materials.” Protection of metals and physical chemistry of surfaces 2009, 45, 529–534.
  24. Lipshutz, B. H.; Nihan, D. M.; Vinogradova, E.; Taft, B. R.; Bošković, Ž, V. “Copper + Nickel-in-Charcoal (Cu-Ni/C): A Bimetallic, Heterogeneous Catalyst for Cross-Couplings.” Org. Lett. 2008, 10, 4279–4282.
  25. Bilan, M. I.; Vinogradova, E. V.; Tsvetkova, E. A.; Grachev, A. A.; Shashkov, A. S.; Nifantiev, N. E.; Usov, A. I. “A Sulfated Glucuronofucan Containing Both Fucofuranose and Fucopyranose Residues from the Brown Alga Chordaria flagelliformis.“ Carbohydr. Res. 2008, 343, 2605–2612.
  26. Bilan, M. I.; Vinogradova, E. V.; Shashkov, A. S.; Usov, A. I. “Structure of a Highly Pyruvylated Galactan Sulfate from the Pacific Green Alga Codium yezoense (Bryopsidales, Chlorophyta).” Carbohydr. Res. 2007, 342, 586–596.
  27. Bilan, M. I.; Vinogradova, E. V.; Shashkov, A. S.; Usov, A. I. “Isolation and Preliminary Characterization of a Highly Pyruvylated Galactan Sulfate from Codium yezoense (Bryopsidales, Chlorophyta).” Botanica Marina 2006, 49, 259–262.

Patents

  • Buchwald, S. L.; Pentelute, B. L.; Spokoyny, A. M.; Vinogradova, E. V.; Zhang, C. PCT Int. Appl. (2016), WO 2016011107 A2 20160121.
  • Weinstein, D.; Cravatt, B. F.; Patricelli, M.; Stamos, D.; Simon, G.; Horning, B.; Vinogradova, E. V.; Nordin, B.; Baltgalvis, K.; Kinsella, T. (2020), USPTO 10,781,239
  • Cravatt, B. F.; Patricelli, M.; Stamos, D.; Simon, G.; Horning, B.; Weinstein, D.; Vinogradova, E. (2020), USPTO 10,869,860
  • Cravatt, B.; Vinogradova E.; Crowley, V.; Zhang, X.; Schafroth, M. A.; Yokoyama, M.; Remillard, D.; Melillo, B.; Schreiber, S. (2020), WO 2021076755
  • Cravatt, B.; Vinogradova, E.; Crowley, V.; Zhang, X.; Schafroth, M. A.; Yokoyama, M.; Remillard, D.; Melillo, B.; Schreiber, S. (2024) US Patent App. US20240131032A1.