Superfund Research Program

Mapping Proteome-Wide Reactivity of Superfund Chemicals Using Chemoproteomic Platforms

Project Leader: Daniel K. Nomura
Co-Investigator: Christopher Chang
Grant Number: P42ES004705
Funding Period: 2017-2022

Project-Specific Links

Publications

2022

• Page AC, Scholz SO, Keenan KN, Spradlin JN, Belcher BP, Brittain SM, Tallarico JA, McKenna JM, Schirle M, Nomura DK, Toste FD. 2022. Photo-Brook rearrangement of acyl silanes as a strategy for photoaffinity probe design. Chem Sci 13:doi:10.1039/d2sc00426g

2021

• Boike L, Cioffi AG, Majewski FC, Co J, Henning NJ, Jones MD, Liu G, McKenna JM, Tallarico JA, Schirle M, Nomura DK. 2021. Discovery of a functional covalent ligand targeting an intrinsically disordered cysteine within MYC. Cell Chem Biol 28(1):4-13.e17. doi:10.1016/j.chembiol.2020.09.001 PMID:32966806 PMCID:PMC7854864
• Iwashita H, Castillo E, Messina MS, Swanson RA, Chang C. 2021. A tandem activity-based sensing and labeling strategy enables imaging of transcellular hydrogen peroxide signaling. Proc Natl Acad Sci U S A 118:doi:10.1073/pnas.2018513118 PMID:33622793 PMCID:PMC7936376
• Zhao Y, Wei L, Tagmount A, Loguinov AV, Sobh A, Hubbard AE, McHale CM, Chang C, Vulpe CD, Zhang L. 2021. Applying genome-wide CRISPR to identify known and novel genes and pathways that modulate formaldehyde toxicity. Chemosphere 269:128701. doi:10.1016/j.chemosphere.2020.128701 PMID:33189395 PMCID:PMC7904579

2020

• Bruemmer KJ, Crossley S, Chang C. 2020. Activity based sensing: A synthetic methods approach for selective molecular imaging and beyond. Angew Chem Int Ed Engl 30:doi:10.1002/anie.201909690 PMID:31605413 PMCID:PMC7665898
• Elledge S, Tran HL, Christian A, Steri V, Hann BC, Toste FD, Chang C, Wells JA. 2020. Systematic identification of engineered methionines and oxaziridines for efficient, stable, and site specific antibody bioconjugation. Proc Natl Acad Sci U S A 117:5733-5740. doi:10.1073/pnas.1920561117 PMID:32123103 PMCID:PMC7084160
• Isobe Y, Okumura M, McGregor LM, Brittain SM, Jones MD, Liang X, White R, Forrester W, McKenna JM, Tallarico JA, Schirle M, Maimone T, Nomura DK. 2020. Manumycin polyketides act as molecular glues between UBR7 and P53. Nat Chem Biol 16:1189-1198. doi:10.1038/s41589-020-0557-2 PMID:32572277 PMCID:PMC7572527
• Toh JD, Crossley S, Bruemmer KJ, Ge EJ, He D, Iovan DA, Chang C. 2020. Distinct RNA N-demethylation pathways catalyzed by nonheme iron ALKBH5 and FTO enzymes enable regulation of formaldehyde release rates. Proc Natl Acad Sci U S A 117:25284-25292. doi:10.1073/pnas.2007349117 PMID:32989163 PMCID:PMC7568336
• Ueno K, Morstein J, Ofusa K, Naganos S, Suzuki-Sawano E, Minegishi S, Rezgui SP, Kitagishi H, Michel BW, Chang C, Horiuchi J, Saitoe M. 2020. Carbon Monoxide, a Retrograde Messenger Generated in Postsynaptic Mushroom Body Neurons, Evokes Noncanonical Dopamine Release. J Neurosci Res 40:3533-3548. doi:10.1523/JNEUROSCI.2378-19.2020 PMID:32253360 PMCID:PMC7189754

2019

• Berdan C, Ho R, Lehtola H, To M, Hu X, Huffman T, Petri Y, Altobelli C, Demeulenaere S, Olzmann J, Maimone T, Nomura DK. 2019. Parthenolide covalently targets and inhibits focal adhesion kinase in breast cancer cells. Cell Chem Biol 26(7):1027-1035. doi:10.1016/j.chembiol.2019.03.016 PMID:31080076 PMCID:PMC6756182
• Bersuker K, Hendricks JM, Li Z, Magtanong L, Ford B, Tang PH, Roberts MA, Tong B, Maimone T, Zoncu R, Bassik MC, Nomura DK, Dixon SJ, Olzmann J. 2019. The CoQ oxidoreductase FSP1 acts parallel to GPX4 to inhibit ferroptosis. Nature 575:688-692. doi:10.1038/s41586-019-1705-2 PMID:31634900 PMCID:PMC6883167
• Christian A, Jia S, Cao W, Zhang P, Meza A, Sigman M, Chang C, Toste FD. 2019. A physical organic approach to tuning reagents for selective and stable methionine bioconjugation. J Am Chem Soc 141(32):12657-12662. doi:10.1021/jacs.9b04744 PMID:31361488 PMCID:PMC6781863
• Jia S, He D, Chang C. 2019. Bioinspired thiophosphorodichloridate reagents for chemoselective histidine bioconjugation. J Am Chem Soc 141(18):7294-7301. doi:10.1021/jacs.8b11912 PMID:31017395 PMCID:PMC6996876
• Ohata J, Bruemmer KJ, Chang C. 2019. Activity-based sensing methods for monitoring the reactive carbon species carbon monoxide and formaldehyde in living systems. Accounts of Chemical Research 52:2841-2848. PMID:31487154
• Su TA, Bruemmer KJ, Chang C. 2019. Caged luciferins for bioluminescent activity-based sensing. Curr Opin Biotechnol 60:198-204. doi:10.1016/j.copbio.2019.05.002 PMID:31200275 PMCID:PMC6891152

2018

• Chang C, Chung CY, Timblin GA, Saijo K. 2018. Versatile histochemical approach to detection of hydrogen peroxide in cells and tissues based on puromycin staining. J Am Chem Soc 140(19):6109-6121. doi:10.1021/jacs.8b02279 PMID:29722974 PMCID:PMC6069982
• Counihan JL, Wiggenhorn AL, Anderson KE, Nomura DK. 2018. Chemoproteomics-enabled covalent ligand screening reveals ALDH3A1 as a lung cancer therapy target. ACS Chem Biol 13(8):1970-1977. doi:10.1021/acschembio.8b00381 PMID:30004670 PMCID:PMC6389507
• Prasse C, Ford B, Nomura DK, Sedlak DL. 2018. Unexpected transformation of dissolved phenols to toxic dicarbonyls by hydroxyl radicals and UV light. Proc Natl Acad Sci U S A 115:2311-2316. doi:10.1073/pnas.1715821115 PMID:29463747 PMCID:PMC5877969
• Su TA, Shihadih DS, Cao W, Detomasi TC, Heffern MC, Jia S, Stahl A, Chang C. 2018. A modular lonophore platform for liver-directed copper supplementation in cells and animals. J Am Chem Soc 140(42):13764-13774. doi:10.1021/jacs.8b08014 PMID:30351140

2017

• Burgos-Barragan G, Wit N, Meiser J, Dingler FA, Pietzke M, Mulderrig L, Pontel LB, Rosado IV, Brewer TF, Cordell RL, Monks PS, Chang C, Vazquez A, Patel KJ. 2017. Mammals divert endogenous genotoxic formaldehyde into one-carbon metabolism. Nature 548:549-554. doi:10.1038/nature23481 PMID:28813411 PMCID:PMC5714256
• Counihan JL, Duckering M, Dalvie ED, Ku WM, Bateman LA, Fisher KJ, Nomura DK. 2017. Chemoproteomic profiling of acetanilide herbicides reveals their role in inhibiting fatty acid oxidation. ACS Chem Biol 12(3):635-642. doi:10.1021/acschembio.6b01001 PMID:28094496 PMCID:PMC6376971