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Reverse metabolomics for the discovery of chemical structures from humans.
Gentry EC, Collins SL, Panitchpakdi M, Belda-Ferre P, Stewart AK, Carrillo Terrazas M, Lu HH, Zuffa S, Yan T, Avila-Pacheco J, Plichta DR, Aron AT, Wang M, Jarmusch AK, Hao F, Syrkin-Nikolau M, Vlamakis H, Ananthakrishnan AN, Boland BS, Hemperly A, Vande Casteele N, Gonzalez FJ, Clish CB, Xavier RJ, Chu H, Baker ES, Patterson AD, Knight R, Siegel D, Dorrestein PC. Gentry EC, et al. Among authors: baker es. Nature. 2024 Feb;626(7998):419-426. doi: 10.1038/s41586-023-06906-8. Epub 2023 Dec 5. Nature. 2024. PMID: 38052229 Free PMC article.
Bile salt hydrolases shape the bile acid landscape and restrict Clostridioides difficile growth in the murine gut.
Foley MH, Walker ME, Stewart AK, O'Flaherty S, Gentry EC, Patel S, Beaty VV, Allen G, Pan M, Simpson JB, Perkins C, Vanhoy ME, Dougherty MK, McGill SK, Gulati AS, Dorrestein PC, Baker ES, Redinbo MR, Barrangou R, Theriot CM. Foley MH, et al. Among authors: baker es. Nat Microbiol. 2023 Apr;8(4):611-628. doi: 10.1038/s41564-023-01337-7. Epub 2023 Mar 13. Nat Microbiol. 2023. PMID: 36914755 Free PMC article.
Using Multidimensional Separations to Distinguish Isomeric Amino Acid-Bile Acid Conjugates and Assess Their Presence and Perturbations in Model Systems.
Stewart AK, Foley MH, Dougherty MK, McGill SK, Gulati AS, Gentry EC, Hagey LR, Dorrestein PC, Theriot CM, Dodds JN, Baker ES. Stewart AK, et al. Among authors: baker es. Anal Chem. 2023 Oct 17;95(41):15357-15366. doi: 10.1021/acs.analchem.3c03057. Epub 2023 Oct 5. Anal Chem. 2023. PMID: 37796494 Free PMC article.
METLIN-CCS: an ion mobility spectrometry collision cross section database.
Baker ES, Hoang C, Uritboonthai W, Heyman HM, Pratt B, MacCoss M, MacLean B, Plumb R, Aisporna A, Siuzdak G. Baker ES, et al. Nat Methods. 2023 Dec;20(12):1836-1837. doi: 10.1038/s41592-023-02078-5. Nat Methods. 2023. PMID: 37932399 Free PMC article. No abstract available.
Introducing the Lipidomics Minimal Reporting Checklist.
McDonald JG, Ejsing CS, Kopczynski D, Holčapek M, Aoki J, Arita M, Arita M, Baker ES, Bertrand-Michel J, Bowden JA, Brügger B, Ellis SR, Fedorova M, Griffiths WJ, Han X, Hartler J, Hoffmann N, Koelmel JP, Köfeler HC, Mitchell TW, O'Donnell VB, Saigusa D, Schwudke D, Shevchenko A, Ulmer CZ, Wenk MR, Witting M, Wolrab D, Xia Y, Ahrends R, Liebisch G, Ekroos K. McDonald JG, et al. Among authors: baker es. Nat Metab. 2022 Sep;4(9):1086-1088. doi: 10.1038/s42255-022-00628-3. Nat Metab. 2022. PMID: 35934691 No abstract available.
PeakDecoder enables machine learning-based metabolite annotation and accurate profiling in multidimensional mass spectrometry measurements.
Bilbao A, Munoz N, Kim J, Orton DJ, Gao Y, Poorey K, Pomraning KR, Weitz K, Burnet M, Nicora CD, Wilton R, Deng S, Dai Z, Oksen E, Gee A, Fasani RA, Tsalenko A, Tanjore D, Gardner J, Smith RD, Michener JK, Gladden JM, Baker ES, Petzold CJ, Kim YM, Apffel A, Magnuson JK, Burnum-Johnson KE. Bilbao A, et al. Among authors: baker es. Nat Commun. 2023 Apr 28;14(1):2461. doi: 10.1038/s41467-023-37031-9. Nat Commun. 2023. PMID: 37117207 Free PMC article.
176 results