Jasmine Zemlin

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Title(s)	SRA 1, JACOBS SCHOOL RESEARCH GROUPS
School	Vc-academic Affairs
Address	9500 Gilman Drive # La Jolla CA 92093
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Bibliographic

selected publications

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.

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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.

MS/MS Mass Spectrometry Filtering Tree for Bile Acid Regio- and Stereoisomer Annotation. Anal Chem. 2026 Feb 17; 98(6):4571-4584. Mohanty I, Xing S, Castillo V, Agongo J, Patan A, El Abiead Y, Mannochio-Russo H, Gonçalves Nunes WD, Zemlin J, Mizrahi I, Siegel D, Wang M, Hagey LR, Dorrestein PC. PMID: 41642850; PMCID: PMC12921657.

View in: PubMed Mentions: Fields:
Che Chemistry Techniques
Translation:Animals
A searchable metadata network graph for microbiome metabolomics. bioRxiv. 2026 Feb 05. Charron-Lamoureux V, Xing S, Patan A, Walker C, Monter RA, Abiead YE, Zhao HN, Patel L, Weng Y, Gonzalez A, Ackermann G, Deleray V, Gandhi V, Mohanty I, Caraballo-Rodriguez AM, Kvitne KE, Zuffa S, Norman A, Martin A, Chin L, Paz-Gonzalez R, Sala-Climent M, Suryawinata N, Zemlin J, Gouda H, Hu Z, Norton G, Rajkumar P, Molina AJ, Bergstrom J, Pinner M, Giddings S, Aron AT, Liang L, Dahesh S, Lamichhane S, Reilly ER, Nizet V, Skrip A, Lukowski AL, Shore SFH, Ghoshal S, Engevik MA, Horvath TD, Renwick S, Agongo J, Marco ML, Mazmanian SK, Wang M, Yang H, McDonald D, Guma M, Stegmann E, Hernandez Perez N, Stincone P, Kemen E, Pakkir Shah AK, Bode L, Petras D, Siegel D, Raffatellu M, Patterson AD, Devkota S, Jinich A, Knight R, Zengler K, Dorrestein PC. PMID: 41676651; PMCID: PMC12889665.

View in: PubMed Mentions:
Retrieval-Augmented Language Models Enable Scalable Chemical Source Classification in Metabolomics Workflows. Anal Chem. 2026 Feb 10; 98(5):3474-3484. Rajkumar P, Tang R, Sapre H, Zemlin J, Deleray V, Seo JI, Mohan S, Xing S, Gouda H, El Abiead Y, Tsunoda SM, Zhao HN, Dorrestein PC. PMID: 41610168; PMCID: PMC12903069.

View in: PubMed Mentions: Fields:
Che Chemistry Techniques
Translation:Humans Animals
Quantitative Food Compounds Enable Dietary Ontology Referencing across 500 Foods and Human Plasma. Anal Chem. 2026 Feb 03; 98(4):3160-3176. Agongo J, Gouda H, McMaugh A, Allaband C, Aghili SM, Sala-Climent M, Xing S, Cao J, Zemlin J, Wang M, Dorrestein K, Holt T, Knight R, Boland BS, Guma M, Dorrestein PC. PMID: 41549429; PMCID: PMC12874208.

View in: PubMed Mentions: Fields:
Che Chemistry Techniques
Translation:Humans
A resource to empirically establish drug exposure records directly from untargeted metabolomics data. Nat Commun. 2025 Dec 09; 16(1):10600. Zhao HN, Kvitne KE, Brungs C, Mohan S, Charron-Lamoureux V, Bittremieux W, Tang R, Schmid R, Lamichhane S, Xing S, El Abiead Y, Andalibi MS, Mannochio-Russo H, Ambre M, Avalon NE, Bryant M, Burnett LA, Caraballo-Rodríguez AM, Maya MC, Chin L, Corominas L, Ellis RJ, Franklin D, Girod S, Gomes PWP, Hansen L, Heaton RK, Iudicello JE, Jarmusch AK, Khatib L, Letendre S, Magyari S, McDonald D, Mohanty I, Cumsille A, Moore DJ, Rajkumar P, Ross DH, Sapre H, Shahneh MRZ, Gil-Solsona R, Thomas SP, Tribelhorn C, Tubb HM, Walker C, Wang CX, Zemlin J, Zuffa S, Wishart DS, Gago-Ferrero P, Kaddurah-Daouk R, Wang M, Raffatellu M, Zengler K, Pluskal T, Xu L, Knight R, Tsunoda SM, Dorrestein PC. PMID: 41366203; PMCID: PMC12689629.

View in: PubMed Mentions: 2 Fields:
Bio Biology Sci Science
Translation:Humans
Effect of Perinatal Ampicillin or Amoxicillin/Clavulanate Exposure on Maternal and Infant Gut Microbiome, Metabolome, and Infant Responses to the 20-valent Pneumococcal Conjugate Vaccine. bioRxiv. 2025 Dec 08. Suzuki E, Deleray V, Zemlin J, Kousha A, Nonoguchi H, Sun D, Tsai CM, Zuffa S, Kvitne KE, Dorrestein PC, Tsunoda SM, Nizet V, Liu GY, Askarian F. PMID: 41427374; PMCID: PMC12713748.

View in: PubMed Mentions:
Charting the Undiscovered Metabolome with Synthetic Multiplexing. bioRxiv. 2025 Nov 19. Patan A, Xing S, Charron-Lamoureux V, Hu Z, Deleray V, Agongo J, El Abiead Y, Mannochio-Russo H, Mohanty I, Gouda H, Zemlin J, Rajkumar P, Lee C, Leanos D, Weimann N, Tsuda W, Giddings S, Bui T, Kvitne KE, Zhao HN, Zuffa S, Nguyen V, Andrade A, Gonçalves Nunes WD, Caraballo-Rodríguez AM, Caetano David L, Carver J, Bandeira N, Wang M, Burnett LA, Siegel D, Dorrestein PC. PMID: 41332743; PMCID: PMC12667992.

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Metatranscriptomics Uncover Diurnal Functional Shifts in Bacterial Transgenes with Profound Metabolic Effects. Cell Host Microbe. 2025 Jul 09; 33(7):1057-1072. Ramos SF, Siguenza N, Zhong W, Mohanty I, Lingaraju A, Richter RA, Karthikeyan S, Lukowski AL, Zhu Q, Nunes WDG, Zemlin J, Xu ZZ, Hasty J, Dorrestein PC, Panda S, Knight R, Zarrinpar A. PMID: 40777923; PMCID: PMC12327816.

View in: PubMed Mentions: 2 Fields:
Mic Microbiology
Translation:Animals Cells
The microbiome diversifies long- to short-chain fatty acid-derived N-acyl lipids. Cell. 2025 Jul 24; 188(15):4154-4169.e19. Mannochio-Russo H, Charron-Lamoureux V, van Faassen M, Lamichhane S, Gonçalves Nunes WD, Deleray V, Ayala AV, Tanaka Y, Patan A, Vittali K, Rajkumar P, El Abiead Y, Zhao HN, Gomes PWP, Mohanty I, Lee C, Sund A, Sharma M, Liu Y, Pattynama D, Walker GT, Norton GJ, Khatib L, Andalibi MS, Wang CX, Ellis RJ, Moore DJ, Iudicello JE, Franklin D, Letendre S, Chin L, Walker C, Renwick S, Zemlin J, Meehan MJ, Song X, Kasper D, Burcham Z, Kim JJ, Kadakia S, Raffatellu M, Bode L, Chu H, Zengler K, Wang M, Siegel D, Knight R, Dorrestein PC. PMID: 40499541; PMCID: PMC12428309.

View in: PubMed Mentions: 6 Fields:
Cel Cell Biology
Translation:Humans
MS/MS Mass Spectrometry Filtering Tree for Bile Acid Isomer Annotation. bioRxiv. 2025 Mar 09. Mohanty I, Xing S, Castillo V, Agongo J, Patan A, Abiead YE, Mannochio-Russo H, Zuffa S, Zemlin J, Tronel A, Gouellec AL, Soranzo T, Wang CX, Iudicello JE, Andalibi MS, Ellis RJ, Moore DJ, Franklin DR, Sala-Climent M, Guma M, Voigt RM, Kaddaruh-Dauok R, Siegel D, Wang M, Hagey LR, Dorrestein PC. PMID: 41659560; PMCID: PMC12874289.

View in: PubMed Mentions: 1
The microbiome diversifies N-acyl lipid pools - including short-chain fatty acid-derived compounds. bioRxiv. 2024 Nov 02. Mannochio-Russo H, Charron-Lamoureux V, van Faassen M, Lamichhane S, Nunes WDG, Deleray V, Patan A, Vittali K, Rajkumar P, El Abiead Y, Zhao HN, Gomes PWP, Mohanty I, Lee C, Sund A, Sharma M, Liu Y, Pattynama D, Walker GT, Norton GJ, Khatib L, Andalibi MS, Wang CX, Ellis RJ, Moore DJ, Iudicello JE, Franklin D, Letendre S, Chin L, Walker C, Renwick S, Zemlin J, Meehan MJ, Song X, Kasper D, Burcham Z, Kim JJ, Kadakia S, Raffatellu M, Bode L, Zengler K, Wang M, Siegel D, Knight R, Dorrestein PC. PMID: 39554097; PMCID: PMC11565975.

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Empirically establishing drug exposure records directly from untargeted metabolomics data. bioRxiv. 2024 Oct 26. Zhao HN, Kvitne KE, Brungs C, Mohan S, Charron-Lamoureux V, Bittremieux W, Tang R, Schmid R, Lamichhane S, El Abiead Y, Andalibi MS, Mannochio-Russo H, Ambre M, Avalon NE, Bryant M, Caraballo-Rodríguez AM, Maya MC, Chin L, Ellis RJ, Franklin D, Girod S, Gomes PWP, Hansen L, Heaton R, Iudicello JE, Jarmusch AK, Khatib L, Letendre S, Magyari S, McDonald D, Mohanty I, Cumsille A, Moore DJ, Rajkumar P, Ross DH, Sapre H, Shahneh MRZ, Thomas SP, Tribelhorn C, Tubb HM, Walker C, Wang CX, Xing S, Zemlin J, Zuffa S, Wishart DS, Kaddurah-Daouk R, Wang M, Raffatellu M, Zengler K, Pluskal T, Xu L, Knight R, Tsunoda SM, Dorrestein PC. PMID: 39416075; PMCID: PMC11482764.

View in: PubMed Mentions:
Noninvasive skin swab analysis detects environmental drug exposure of pharmacy staff. Clin Transl Sci. 2024 Oct; 17(10):e70022. Thompson S, Abelyan S, Panitchpakdi M, Zemlin J, Thomas S, Zhao HN, Dorrestein PC, Tsunoda SM. PMID: 39323235; PMCID: PMC11424816.

View in: PubMed Mentions: 1 Fields:
Med Medicine (General)
Translation:Humans PHPublic Health
Pathogenic Bacteroides fragilis strains can emerge from gut-resident commensals. bioRxiv. 2024 Jun 19. Oles RE, Terrazas MC, Loomis LR, Neal MJ, Paulchakrabarti M, Zuffa S, Hsu CY, Vasquez Ayala A, Lee MH, Tribelhorn C, Belda-Ferre P, Bryant M, Zemlin J, Young J, Dulai P, Sandborn WJ, Sivagnanam M, Raffatellu M, Pride D, Dorrestein PC, Zengler K, Choudhury B, Knight R, Chu H. PMID: 38948766; PMCID: PMC11213024.

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The underappreciated diversity of bile acid modifications. Cell. 2024 Mar 28; 187(7):1801-1818.e20. Mohanty I, Mannochio-Russo H, Schweer JV, El Abiead Y, Bittremieux W, Xing S, Schmid R, Zuffa S, Vasquez F, Muti VB, Zemlin J, Tovar-Herrera OE, Moraïs S, Desai D, Amin S, Koo I, Turck CW, Mizrahi I, Kris-Etherton PM, Petersen KS, Fleming JA, Huan T, Patterson AD, Siegel D, Hagey LR, Wang M, Aron AT, Dorrestein PC. PMID: 38471500; PMCID: PMC12248420.

View in: PubMed Mentions: 88 Fields:
Cel Cell Biology
Translation:Humans Animals
microbeMASST: a taxonomically informed mass spectrometry search tool for microbial metabolomics data. Nat Microbiol. 2024 Feb; 9(2):336-345. Zuffa S, Schmid R, Bauermeister A, P Gomes PW, Caraballo-Rodriguez AM, El Abiead Y, Aron AT, Gentry EC, Zemlin J, Meehan MJ, Avalon NE, Cichewicz RH, Buzun E, Terrazas MC, Hsu CY, Oles R, Ayala AV, Zhao J, Chu H, Kuijpers MCM, Jackrel SL, Tugizimana F, Nephali LP, Dubery IA, Madala NE, Moreira EA, Costa-Lotufo LV, Lopes NP, Rezende-Teixeira P, Jimenez PC, Rimal B, Patterson AD, Traxler MF, Pessotti RC, Alvarado-Villalobos D, Tamayo-Castillo G, Chaverri P, Escudero-Leyva E, Quiros-Guerrero LM, Bory AJ, Joubert J, Rutz A, Wolfender JL, Allard PM, Sichert A, Pontrelli S, Pullman BS, Bandeira N, Gerwick WH, Gindro K, Massana-Codina J, Wagner BC, Forchhammer K, Petras D, Aiosa N, Garg N, Liebeke M, Bourceau P, Kang KB, Gadhavi H, de Carvalho LPS, Silva Dos Santos M, Pérez-Lorente AI, Molina-Santiago C, Romero D, Franke R, Brönstrup M, Vera Ponce de León A, Pope PB, La Rosa SL, La Barbera G, Roager HM, Laursen MF, Hammerle F, Siewert B, Peintner U, Licona-Cassani C, Rodriguez-Orduña L, Rampler E, Hildebrand F, Koellensperger G, Schoeny H, Hohenwallner K, Panzenboeck L, Gregor R, O'Neill EC, Roxborough ET, Odoi J, Bale NJ, Ding S, Sinninghe Damsté JS, Guan XL, Cui JJ, Ju KS, Silva DB, Silva FMR, da Silva GF, Koolen HHF, Grundmann C, Clement JA, Mohimani H, Broders K, McPhail KL, Ober-Singleton SE, Rath CM, McDonald D, Knight R, Wang M, Dorrestein PC. PMID: 38316926; PMCID: PMC10847041.

View in: PubMed Mentions: 50 Fields:
Mic Microbiology Par Parasitology Vir Virology
Translation:Humans
Open access repository-scale propagated nearest neighbor suspect spectral library for untargeted metabolomics. Nat Commun. 2023 12 20; 14(1):8488. Bittremieux W, Avalon NE, Thomas SP, Kakhkhorov SA, Aksenov AA, Gomes PWP, Aceves CM, Caraballo-Rodríguez AM, Gauglitz JM, Gerwick WH, Huan T, Jarmusch AK, Kaddurah-Daouk RF, Kang KB, Kim HW, Kondic T, Mannochio-Russo H, Meehan MJ, Melnik AV, Nothias LF, O'Donovan C, Panitchpakdi M, Petras D, Schmid R, Schymanski EL, van der Hooft JJJ, Weldon KC, Yang H, Xing S, Zemlin J, Wang M, Dorrestein PC. PMID: 38123557; PMCID: PMC10733301.

View in: PubMed Mentions: 35 Fields:
Bio Biology Sci Science
A Taxonomically-informed Mass Spectrometry Search Tool for Microbial Metabolomics Data. Res Sq. 2023 Aug 03. Zuffa S, Schmid R, Bauermeister A, Gomes PWP, Caraballo-Rodriguez AM, Abiead YE, Aron AT, Gentry EC, Zemlin J, Meehan MJ, Avalon NE, Cichewicz RH, Buzun E, Terrazas MC, Hsu CY, Oles R, Ayala AV, Zhao J, Chu H, Kuijpers MCM, Jackrel SL, Tugizimana F, Nephali LP, Dubery IA, Madala NE, Moreira EA, Costa-Lotufo LV, Lopes NP, Rezende-Teixeira P, Jimenez PC, Rimal B, Patterson AD, Traxler MF, de Cassia Pessotti R, Alvarado-Villalobos D, Tamayo-Castillo G, Chaverri P, Escudero-Leyva E, Quiros-Guerrero LM, Bory AJ, Joubert J, Rutz A, Wolfender JL, Allard PM, Sichert A, Pontrelli S, Pullman BS, Bandeira N, Gerwick WH, Gindro K, Massana-Codina J, Wagner BC, Forchhammer K, Petras D, Aiosa N, Garg N, Liebeke M, Bourceau P, Kang KB, Gadhavi H, de Carvalho LPS, Dos Santos MS, Pérez-Lorente AI, Molina-Santiago C, Romero D, Franke R, Brönstrup M, de León AVP, Pope PB, Rosa SL, Barbera G, Roager HM, Laursen MF, Hammerle F, Siewert B, Peintner U, Licona-Cassani C, Rodriguez-Orduña L, Rampler E, Hildebrand F, Koellensperger G, Schoeny H, Hohenwallner K, Panzenboeck L, Gregor R, O'Neill EC, Roxborough ET, Odoi J, Bale NJ, Ding S, Sinninghe Damsté JS, Guan XL, Cui JJ, Ju KS, Silva DB, Silva FMR, da Silva GF, Koolen HHF, Grundmann C, Clement JA, Mohimani H, Broders K, McPhail KL, Ober-Singleton SE, Rath CM, McDonald D, Knight R, Wang M, Dorrestein PC. PMID: 37577622; PMCID: PMC10418563.

View in: PubMed Mentions:
Effects of a ketogenic and low-fat diet on the human metabolome, microbiome, and foodome in adults at risk for Alzheimer's disease. Alzheimers Dement. 2023 11; 19(11):4805-4816. Dilmore AH, Martino C, Neth BJ, West KA, Zemlin J, Rahman G, Panitchpakdi M, Meehan MJ, Weldon KC, Blach C, Schimmel L, Kaddurah-Daouk R, Dorrestein PC, Knight R, Craft S, Alzheimer's Gut Microbiome Project Consortium. PMID: 37017243; PMCID: PMC10551050.

View in: PubMed Mentions: 50 Fields:
Neu Neurology Psy Psychiatry
Translation:Humans