For the most up-to-date list, please visit Emily’s Google Scholar page.

1. Channell, K. G.; Sandusky, L. E.*; Gentry, E. C. Unlocking thioester-mediated biocatalysis with in situ cofactor recycling. Chem Catal. 2023 3(3), 100571.

Prior to VT

23. Gentry, E. C., Collins, S. L.; Panitchpakdi, M.; Belda-Ferre, P.; Stewart, A. K.; Carrillo-Terrazas, M.; Lu, H.; Zuffa, S.; Yan, T.; Avila-Pacheco, J.; Plichta, D. R.; Aron, A. T.; Wang, M.; Jarmusch, A. K.; Syrkin-Nikolau, M.; Vlamakis, H.; Ananthakrishnan, A. N.; Boland, B.; Hemperly, A.; Vande Casteele, N.; Gonzalez, F. J.; Clish, C. B.; Xavier, R. J.; Chu, H.; Baker, E. S.; Patterson, A. D.; Knight, R.; Siegel, D.; Dorrestein, P. C. Reverse Metabolomics for the Discovery of Chemical Structures from Humans. Nature 2024 626, 419–426.

22. Rimal, B.; Collins, S. L.; Rocha, E. R.; Granda, M. A.; Solanki, S.; Hoque, N.; Gentry, E. C.; Koo, I.; Yan, T.; Bisanz, J. E.; Krausz, K. W.; Desai, D.; Amin, S.; Coleman, J. P.; Shah, Y. M.; Gonzalez, F. J.; Heuvel, J. P. V.; Dorrestein, P. C.; Weinert, E. E.; Patterson, A. D. Bile Acids Are Substrates for Amine N-Acyl Transferase Activity by Bile Salt Hydrolase. Nature 2024.

21. Zuffa, S. et al. MicrobeMASST: a taxonomically informed mass spectrometry search tool for microbial metabolomics data Nature Microbiology 2024, 9, 336–345

20. Mannochio-Russo, H.* ; Swift, S. O. I.* ; Nakayama, K. K.; Wall, C. B.; Gentry, E. C.; Panitchpakdi, M.; Caraballo-Rodriguez, A. M.; Aron, A. T.; Petras, D.; Dorrestein, K.; Dorrestein, T. K.; Williams, T. M.; Nalley, E. M.; Altman-Kurosaki, N. T.; Martinelli, M.; Kuwabara, J. Y.; Darcy, J. L; Bolzani, V. S.; Wegley Kelly, L.; Mora, C.; Yew, J. Y.; Amend, A. S.; McFall-Ngai, M.; Hynson, N. A.; Dorrestein, P. C.; Nelson, C. E. Microbiomes and Metabolomes of Dominant Coral Reef Primary Producers Illustrate a Potential Role for Immunolipids in Marine Symbioses. Communications Biology 2023, 6, 896.

19. Foley, M.H.*; Walker, M.E.*; Stewart, A.K.; O’Flaherty, S.; Gentry, E. C.; Patel, S.; Beaty, V. V.; Allen, G.; Pan, M.; Simpson, J. B.; Perkins, C.; Vanhoy, M. E.; Dougherty, M. K.; McGill, S. K.; Gulati, A. S.; Dorrestein, P. C.; Baker, E. S.; Redinbo, M. R.; Barrangou, R.; Theriot, C. M. Bile salt hydrolases shape the bile acid landscape and restrict Clostridioides difficile growth in the murine gut. Nat. Microbiol. 2023 8, 611–628.

18. Sparagon, W. J.; Gentry, E. C.; Minich, J.; Vollbrecht, L.; Laurens, L.; Allan, E. E.; Sims, N.; Dorrestein, P. C.; Wegley Kelly, L.; Nelson, C. E. Fine scale transitions of the microbiota and metabolome along the gastrointestinal tract of herbivorous fishes. Anim. Microbiome 2022, 4:33.

17. Panitchpakdi, M.; Weldon, K. C.; Jarmusch, A. K.; Gentry, E. C.; Choi, A.; Sepulveda, Y.; Aguirre, S.; Sun, K.; Momper, J. D.; Dorrestein, P. C.; Tsunoda, S. M. Non-Invasive Skin Sampling Detects Systemically Administered Drugs in Humans. PLoS ONE 2022 17(7), e0271794.

16. Hoffmann, M. A.; Nothias, L.-F.; Ludwig, M.; Fleischauer, M.; Gentry, E. C.; Witting, M.; Dorrestein, P. C.; Dührkop, K.; Böcker, S. High-Confidence Structural Annotation of Metabolites Absent from Spectral Libraries. Nat. Biotechnol. 2022 40 (3), 411-421.

15. Petras, D.; Caraballo-Rodriguez, A. M.; Jarmusch, A. K.; Molina-Santiago, C.; Gauglitz, J. M.; Gentry, E. C.; Belda-Ferre, P.; Romero, D.; Tsunoda, S. M.; Dorrestein, P. C.; Wang, M. Chemical Proportionality within Molecular Networks. Analytical Chemistry 2021, 93, 12833–12839. 

14. Leao, T.F.; Clark, C.M.; Bauermeister, A.; Elijah, E.O.; Gentry, E. C.; Husband, M.; Oliveira, M.F.; Bandeira, N.; Wang, M.; Dorrestein, P.C. Quick-Start Infrastructure for Untargeted Metabolomics Analysis in GNPS. Nat Metab. 2021, 3, 880–882.

13. Schmid, R.; Petras, D.; Nothias, L.F., [and 42 others including Gentry, E. C.] Ion Identity Molecular Networking for Mass Spectrometry-Based Metabolomics in the GNPS Environment. Nat. Commun. 2021, 12, 3832.

12. Schorn, M. A.; Verhoeven, S.; Ridder, L.; Huber, F., [and 104 others including Gentry, E. C.] A Community Resource for Paired Genomic and Metabolomic Data Mining. Nat. Chem. Biol. 2021, 17, 363–368. 

11. Taylor, B. C.; Weldon, K. C., [and 18 others including Gentry, E. C.] Depression in Individuals Coinfected with HIV and HCV Is Associated with Systematic Differences in the Gut Microbiome and Metabolome. mSystems 2020, 5, e00465-20. 

10. Jarmusch, A. K.; Wang, M.; Aceves, C. M., [and 41 others including Gentry, E. C.] ReDU: A Framework to Find and Reanalyze Public Mass Spectrometry Data. Nat. Methods 2020, 17, 901–904. 

9. Dethloff, F.; Vargas, F.; Elijah, E.; Quinn, R.; Park, D. I.; Herzog, D. P.; Müller, M. B.; Gentry, E. C.; Knight, R.; Gonzalez, A.; Dorrestein, P. C.; Turck, C. W. Paroxetine Administration Affects Microbiota and Bile Acid Levels in Mice. Front. Psychiatry 2020, 11, 518.

8. Vargas, F.; Weldon, K. C.; Sikora, N.; Wang, M.; Zhang, Z.; Gentry, E. C.; Panitchpakdi, M. W.; Caraballo-Rodríguez, A. M.; Dorrestein, P. C.; Jarmusch, A. K. Protocol for Community-Created Public MS/MS Reference Spectra within the Global Natural Products Social Molecular Networking Infrastructure. Rapid Commun Mass Spectrom. 2020, 34, e8725.

7. Aron, A. T.; Gentry, E. C.; McPhail, K. L., [and 39 others] Reproducible Molecular Networking of Untargeted Mass Spectrometry Data using GNPS.  Nat Protoc. 2020, 15, 1954–1991.

6. Quinn, R. A.; Melnik, A. V.; Vrbanac, A. [and 49 others including Gentry, E. C.] Global Chemical Effects of the Microbiome Include New Bile Acid Conjugates. Nature 2020, 579, 123–129.

5. Wang, M.; Jarmusch, A. K.; Vargas, F., [and 33 others including Gentry, E. C.] Mass spectrometry searches using MASST. Nat Biotechnol. 2020, 38, 23–26.

4. Gentry, E. C.; Rono, L. J.; Hale, M. E.; Matsuura, R.; Knowles, R. R. Enantioselective Synthesis of Pyrroloindolines via Non-Covalent Stabilization of Indole Radical Cations and Applications to the Synthesis of Alkaloid Natural Products. J. Am. Chem. Soc. 2018, 140, 3394–3402.

3. Gentry, E. C.; Knowles, R. R. Synthetic Applications of Proton-Coupled Electron Transfer.  Acc. Chem. Res. 2016, 49, 1546–1556. (published as part of a special issue “Photoredox Catalysis in Organic Chemistry”)

2. Zhu, Q.; Gentry, E. C.; Knowles, R. R. Catalytic Carbocation Generation Enabled by the Mesolytic Cleavage of Alkoxyamine Radical Cations. Angew. Chem., Int. Ed. 2016, 55, 9969–9973.

1. Steward, K. M.; Gentry, E. C.; Johnson, J. S. Dynamic Kinetic Resolution of α-Keto Esters via Asymmetric Transfer Hydrogenation. J. Am. Chem. Soc. 2012, 134, 7329–7332. (featured in Synfacts)