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For: Shen X, Wang R, Xiong X, Yin Y, Cai Y, Ma Z, Liu N, Zhu ZJ. Metabolic reaction network-based recursive metabolite annotation for untargeted metabolomics. Nat Commun 2019;10:1516. [PMID: 30944337 DOI: 10.1038/s41467-019-09550-x] [Citation(s) in RCA: 210] [Impact Index Per Article: 35.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2018] [Accepted: 03/13/2019] [Indexed: 12/31/2022]  Open
Number Cited by Other Article(s)
1
Li S, An J, Zhang T, Chen G, Zhang Z, Guo Z, Dai Z, Cheng X, Cheng S, Xiong X, Wang N, Jiang G, Xu B, Lei H. Integration of network pharmacology, UHPLC-Q exactive orbitrap HRMS technique and metabolomics to elucidate the active ingredients and mechanisms of compound danshen pills in treating hypercholesterolemic rats. JOURNAL OF ETHNOPHARMACOLOGY 2025;336:118759. [PMID: 39209003 DOI: 10.1016/j.jep.2024.118759] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2024] [Revised: 08/18/2024] [Accepted: 08/26/2024] [Indexed: 09/04/2024]
2
Yin H, Duo H, Li S, Qin D, Xie L, Xiao Y, Sun J, Tao J, Zhang X, Li Y, Zou Y, Yang Q, Yang X, Hao Y, Li B. Unlocking biological insights from differentially expressed genes: Concepts, methods, and future perspectives. J Adv Res 2024:S2090-1232(24)00560-5. [PMID: 39647635 DOI: 10.1016/j.jare.2024.12.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2024] [Revised: 10/12/2024] [Accepted: 12/03/2024] [Indexed: 12/10/2024]  Open
3
Wang C, Zhang J, Gao F, Zheng M, Fu X, Yang K. Investigating the effects of COVID-19 on sperm in male smokers: A prospective integrated proteomic and metabolomic study. Reprod Toxicol 2024;130:108734. [PMID: 39406274 DOI: 10.1016/j.reprotox.2024.108734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2024] [Revised: 09/28/2024] [Accepted: 10/11/2024] [Indexed: 10/18/2024]
4
Zhang T, Fu W, Zhang H, Li J, Xing B, Cai Y, Zhang M, Liu X, Qi C, Qian L, Hu X, Zhu H, Yang S, Zhang M, Liu J, Li G, Li Y, Xiang R, Qi Z, Hu J, Li Y, Zou C, Wang Q, Jin X, Pang R, Li P, Liu J, Zhang Y, Wang Z, Zhu ZJ, Shan B, Yuan J. Spermidine mediates acetylhypusination of RIPK1 to suppress diabetes onset and progression. Nat Cell Biol 2024;26:2099-2114. [PMID: 39511379 DOI: 10.1038/s41556-024-01540-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2023] [Accepted: 09/19/2024] [Indexed: 11/15/2024]
5
Zhao F, Tie N, Kwok LY, Ma T, Wang J, Man D, Yuan X, Li H, Pang L, Shi H, Ren S, Yu Z, Shen X, Li H, Zhang H. Baseline gut microbiome as a predictive biomarker of response to probiotic adjuvant treatment in gout management. Pharmacol Res 2024;209:107445. [PMID: 39396767 DOI: 10.1016/j.phrs.2024.107445] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/09/2024] [Revised: 09/30/2024] [Accepted: 09/30/2024] [Indexed: 10/15/2024]
6
Wang X, Liang S, Yang W, Yu K, Liang F, Zhao B, Zhu X, Zhou C, Mur LAJ, Roberts JA, Zhang J, Zhang X. MetMiner: A user-friendly pipeline for large-scale plant metabolomics data analysis. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2024;66:2329-2345. [PMID: 39254487 PMCID: PMC11583839 DOI: 10.1111/jipb.13774] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2024] [Revised: 07/26/2024] [Accepted: 08/16/2024] [Indexed: 09/11/2024]
7
Yan J, Zhang X, Wang H, Jia X, Wang R, Wu S, Zhu ZJ, Tan M, Horng T. Macrophage NRF1 promotes mitochondrial protein turnover via the ubiquitin proteasome system to limit mitochondrial stress and inflammation. Cell Rep 2024;43:114780. [PMID: 39325625 DOI: 10.1016/j.celrep.2024.114780] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2024] [Revised: 08/09/2024] [Accepted: 09/05/2024] [Indexed: 09/28/2024]  Open
8
Zhou M, Wu J, Wu L, Sun X, Chen C, Huang L. The utilization of N-acetylgalactosamine and its effect on the metabolism of amino acids in Erysipelotrichaceae strain. BMC Microbiol 2024;24:397. [PMID: 39379811 PMCID: PMC11462708 DOI: 10.1186/s12866-024-03505-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2024] [Accepted: 09/06/2024] [Indexed: 10/10/2024]  Open
9
Shen J, Qiao L. Proteomic and metabolic analysis of Moorella thermoacetica-g-C3N4 nanocomposite system for artificial photosynthesis. Talanta 2024;278:126479. [PMID: 38941811 DOI: 10.1016/j.talanta.2024.126479] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2024] [Revised: 06/18/2024] [Accepted: 06/24/2024] [Indexed: 06/30/2024]
10
Nguyen QH, Nguyen H, Oh EC, Nguyen T. Current approaches and outstanding challenges of functional annotation of metabolites: a comprehensive review. Brief Bioinform 2024;25:bbae498. [PMID: 39397425 PMCID: PMC11471905 DOI: 10.1093/bib/bbae498] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2024] [Revised: 09/03/2024] [Accepted: 10/02/2024] [Indexed: 10/15/2024]  Open
11
Zhao M, Che Y, Gao Y, Zhang X. Application of multi-omics in the study of traditional Chinese medicine. Front Pharmacol 2024;15:1431862. [PMID: 39309011 PMCID: PMC11412821 DOI: 10.3389/fphar.2024.1431862] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2024] [Accepted: 08/28/2024] [Indexed: 09/25/2024]  Open
12
Wang X, Strobel M, Aron AT, Phelan VV, Acharya DD, Brown CJ, Clevenger K, Hu J, Kretsch A, Mahood EH, Menegatti C, Xiong Q, Wang M. Network Topology Evaluation and Transitive Alignments for Molecular Networking. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2024;35:2165-2175. [PMID: 39133821 PMCID: PMC11516331 DOI: 10.1021/jasms.4c00208] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/05/2024]
13
Song Q, Hu C, Zhang X, Ji P, Li Y, Peng H, Zheng Y, Zhang H. Integrated multi-omics approaches reveal the neurotoxicity of triclocarban in mouse brain. ENVIRONMENT INTERNATIONAL 2024;191:108987. [PMID: 39217723 DOI: 10.1016/j.envint.2024.108987] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2024] [Revised: 08/12/2024] [Accepted: 08/26/2024] [Indexed: 09/04/2024]
14
Gan X, Li X, Cai Y, Yin B, Pan Q, Teng T, He Y, Tang H, Wang T, Li J, Zhu Z, Zhou X, Li J. Metabolic features of adolescent major depressive disorder: A comparative study between treatment-resistant depression and first-episode drug-naive depression. Psychoneuroendocrinology 2024;167:107086. [PMID: 38824765 DOI: 10.1016/j.psyneuen.2024.107086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/03/2024] [Revised: 04/12/2024] [Accepted: 05/21/2024] [Indexed: 06/04/2024]
15
Lan Q, Li X, Fang J, Yu X, Wu ZE, Yang C, Jian H, Li F. Comprehensive biomarker analysis of metabolomics in different syndromes in traditional Chinese medical for prediabetes mellitus. Chin Med 2024;19:114. [PMID: 39183283 PMCID: PMC11346218 DOI: 10.1186/s13020-024-00983-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2024] [Accepted: 08/16/2024] [Indexed: 08/27/2024]  Open
16
Deng Y, Yao Y, Wang Y, Yu T, Cai W, Zhou D, Yin F, Liu W, Liu Y, Xie C, Guan J, Hu Y, Huang P, Li W. An end-to-end deep learning method for mass spectrometry data analysis to reveal disease-specific metabolic profiles. Nat Commun 2024;15:7136. [PMID: 39164279 PMCID: PMC11335749 DOI: 10.1038/s41467-024-51433-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2024] [Accepted: 08/07/2024] [Indexed: 08/22/2024]  Open
17
Li X, Zhou Chen Y, Kalia A, Zhu H, Liu LP, Hassoun S. An Ensemble Spectral Prediction (ESP) model for metabolite annotation. Bioinformatics 2024;40:btae490. [PMID: 39180771 PMCID: PMC11344591 DOI: 10.1093/bioinformatics/btae490] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2022] [Revised: 06/25/2024] [Indexed: 08/26/2024]  Open
18
Yang Y, Fang H, Xie Z, Ren F, Yan L, Zhang M, Xu G, Song Z, Chen Z, Sun W, Shan B, Zhu ZJ, Xu D. Yersinia infection induces glucose depletion and AMPK-dependent inhibition of pyroptosis in mice. Nat Microbiol 2024;9:2144-2159. [PMID: 38844594 DOI: 10.1038/s41564-024-01734-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2023] [Accepted: 04/04/2024] [Indexed: 08/09/2024]
19
Luo W, Chou L, Cui Q, Wei S, Zhang X, Guo J. High-efficiency effect-directed analysis (EDA) advancing toxicant identification in aquatic environments: Latest progress and application status. ENVIRONMENT INTERNATIONAL 2024;190:108855. [PMID: 38945088 DOI: 10.1016/j.envint.2024.108855] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2024] [Revised: 05/21/2024] [Accepted: 06/26/2024] [Indexed: 07/02/2024]
20
Jiang Y, Cai Y, Teng T, Wang X, Yin B, Li X, Yu Y, Liu X, Wang J, Wu H, He Y, Zhu ZJ, Zhou X. Dysregulations of amino acid metabolism and lipid metabolism in urine of children and adolescents with major depressive disorder: a case-control study. Psychopharmacology (Berl) 2024;241:1691-1703. [PMID: 38605232 DOI: 10.1007/s00213-024-06590-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Accepted: 04/08/2024] [Indexed: 04/13/2024]
21
Li X, Li J, Yu F, Feng X, Luo Y, Liu Z, Zhao T, Xia J. The Untargeted Metabolomics Reveals Differences in Energy Metabolism in Patients with Different Subtypes of Ischemic Stroke. Mol Neurobiol 2024;61:5308-5319. [PMID: 38183570 DOI: 10.1007/s12035-023-03884-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Accepted: 12/13/2023] [Indexed: 01/08/2024]
22
Zhuang X, Li M, Mi L, Zhang X, Pu J, He G, Zhang L, Yu H, Yao L, Chen H, Ji Y, Zuo C, Su Y, Gan Y, Hao X, Zhang Y, Chen X, Wen F. Molecular Responses of Anti-VEGF Therapy in Neovascular Age-Related Macular Degeneration: Integrative Insights From Multi-Omics and Clinical Imaging. Invest Ophthalmol Vis Sci 2024;65:24. [PMID: 39140961 PMCID: PMC11328887 DOI: 10.1167/iovs.65.10.24] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2024] [Accepted: 06/05/2024] [Indexed: 08/15/2024]  Open
23
Chen Y, Dan Z, Li S. GROWTH REGULATING FACTOR 7-mediated arbutin metabolism enhances rice salt tolerance. THE PLANT CELL 2024;36:2834-2850. [PMID: 38701348 PMCID: PMC11289636 DOI: 10.1093/plcell/koae140] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2024] [Revised: 03/21/2024] [Accepted: 03/22/2024] [Indexed: 05/05/2024]
24
Chen J, Wang Y, Chen C, Song X, Shen X, Cao D, Zhao Z. Integrated network pharmacology and metabolomics reveal vascular protective effects of Ilex pubescens on thromboangiitis obliterans. PHYTOMEDICINE : INTERNATIONAL JOURNAL OF PHYTOTHERAPY AND PHYTOPHARMACOLOGY 2024;130:155720. [PMID: 38763010 DOI: 10.1016/j.phymed.2024.155720] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2024] [Revised: 04/09/2024] [Accepted: 05/05/2024] [Indexed: 05/21/2024]
25
Lv J, Pan C, Cai Y, Han X, Wang C, Ma J, Pang J, Xu F, Wu S, Kou T, Ren F, Zhu ZJ, Zhang T, Wang J, Chen Y. Plasma metabolomics reveals the shared and distinct metabolic disturbances associated with cardiovascular events in coronary artery disease. Nat Commun 2024;15:5729. [PMID: 38977723 PMCID: PMC11231153 DOI: 10.1038/s41467-024-50125-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2023] [Accepted: 07/01/2024] [Indexed: 07/10/2024]  Open
26
Yan J, Zhang X, Zhu K, Yu M, Liu Q, De Felici M, Zhang T, Wang J, Shen W. Sleep deprivation causes gut dysbiosis impacting on systemic metabolomics leading to premature ovarian insufficiency in adolescent mice. Theranostics 2024;14:3760-3776. [PMID: 38948060 PMCID: PMC11209713 DOI: 10.7150/thno.95197] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2024] [Accepted: 06/06/2024] [Indexed: 07/02/2024]  Open
27
Wang S, He JN, Wang YJ, Zhao WY, Yang QX, Wang YN, Zhang Y, Zhang LP, Liu HW. Metabolome and Genome Analysis of a Novel Endophytic Fungus Aureobasidium pullulans KB3: Discovery of Polyketones and Polyketone Biosynthesis Pathway. Biochem Genet 2024:10.1007/s10528-024-10866-7. [PMID: 38877158 DOI: 10.1007/s10528-024-10866-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2023] [Accepted: 06/09/2024] [Indexed: 06/16/2024]
28
Zhao S, Guo T, Yao Y, Dong B, Zhao G. Research advancements in the maintenance mechanism of Sporidiobolus pararoseus enhancing the quality of soy sauce during fermentation. Int J Food Microbiol 2024;417:110690. [PMID: 38581832 DOI: 10.1016/j.ijfoodmicro.2024.110690] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2024] [Revised: 03/21/2024] [Accepted: 04/01/2024] [Indexed: 04/08/2024]
29
Song JJ, Cai J, Ma WJ, Lou Y, Bian J, Zhao B, She X, Liu XN. Untargeted metabolomics reveals potential plasma biomarkers for diagnosis of primary aldosteronism using liquid chromatography-mass spectrometry. Biomed Chromatogr 2024;38:e5855. [PMID: 38442715 DOI: 10.1002/bmc.5855] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2023] [Revised: 01/31/2024] [Accepted: 02/08/2024] [Indexed: 03/07/2024]
30
He M, Liu A, Shi J, Xu YJ, Liu Y. Multi-Omics Reveals the Effects of Cannabidiol on Gut Microbiota and Metabolic Phenotypes. Cannabis Cannabinoid Res 2024;9:714-727. [PMID: 37098174 DOI: 10.1089/can.2022.0331] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/27/2023]  Open
31
Wang X, Yu N, Jiao Z, Li L, Yu H, Wei S. Machine learning-enhanced molecular network reveals global exposure to hundreds of unknown PFAS. SCIENCE ADVANCES 2024;10:eadn1039. [PMID: 38781329 PMCID: PMC11114235 DOI: 10.1126/sciadv.adn1039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2023] [Accepted: 04/17/2024] [Indexed: 05/25/2024]
32
Wu S, Zhou H, Chen D, Lu Y, Li Y, Qiao J. Multi-omic analysis tools for microbial metabolites prediction. Brief Bioinform 2024;25:bbae264. [PMID: 38859767 PMCID: PMC11165163 DOI: 10.1093/bib/bbae264] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2024] [Revised: 05/08/2024] [Indexed: 06/12/2024]  Open
33
Pang Z, Xu L, Viau C, Lu Y, Salavati R, Basu N, Xia J. MetaboAnalystR 4.0: a unified LC-MS workflow for global metabolomics. Nat Commun 2024;15:3675. [PMID: 38693118 PMCID: PMC11063062 DOI: 10.1038/s41467-024-48009-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2023] [Accepted: 04/18/2024] [Indexed: 05/03/2024]  Open
34
Perez de Souza L, Fernie AR. Computational methods for processing and interpreting mass spectrometry-based metabolomics. Essays Biochem 2024;68:5-13. [PMID: 37999335 PMCID: PMC11065554 DOI: 10.1042/ebc20230019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2023] [Revised: 11/10/2023] [Accepted: 11/15/2023] [Indexed: 11/25/2023]
35
Zhu Y, Wang H, Li J, Wang Z, Wang Y. Metabolic Profiles and Microbial Synergy Mechanism of Anammox Biomass Enrichment and Membrane Fouling Alleviation in the Anammox Dynamic Membrane Bioreactor. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024;58:6284-6295. [PMID: 38488464 DOI: 10.1021/acs.est.3c10030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/10/2024]
36
Qiu H, Zhang X, Zhang Y, Jiang X, Ren Y, Gao D, Zhu X, Usadel B, Fernie AR, Wen W. Depicting the genetic and metabolic panorama of chemical diversity in the tea plant. PLANT BIOTECHNOLOGY JOURNAL 2024;22:1001-1016. [PMID: 38048231 PMCID: PMC10955498 DOI: 10.1111/pbi.14241] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2023] [Revised: 09/11/2023] [Accepted: 11/12/2023] [Indexed: 12/06/2023]
37
Ma G, Kang J, Yu T. Bayesian functional analysis for untargeted metabolomics data with matching uncertainty and small sample sizes. Brief Bioinform 2024;25:bbae141. [PMID: 38581417 PMCID: PMC10998539 DOI: 10.1093/bib/bbae141] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2023] [Revised: 02/28/2024] [Accepted: 03/13/2024] [Indexed: 04/08/2024]  Open
38
Yin B, Cai Y, Teng T, Wang X, Liu X, Li X, Wang J, Wu H, He Y, Ren F, Kou T, Zhu ZJ, Zhou X. Identifying plasma metabolic characteristics of major depressive disorder, bipolar disorder, and schizophrenia in adolescents. Transl Psychiatry 2024;14:163. [PMID: 38531835 DOI: 10.1038/s41398-024-02886-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 08/03/2023] [Revised: 03/14/2024] [Accepted: 03/19/2024] [Indexed: 03/28/2024]  Open
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Cooper B, Yang R. An assessment of AcquireX and Compound Discoverer software 3.3 for non-targeted metabolomics. Sci Rep 2024;14:4841. [PMID: 38418855 PMCID: PMC10902394 DOI: 10.1038/s41598-024-55356-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2023] [Accepted: 02/22/2024] [Indexed: 03/02/2024]  Open
40
Zhu A, Liu M, Tian Z, Liu W, Hu X, Ao M, Jia J, Shi T, Liu H, Li D, Mao H, Su H, Yan W, Li Q, Lan C, Fernie AR, Chen W. Chemical-tag-based semi-annotated metabolomics facilitates gene identification and specialized metabolic pathway elucidation in wheat. THE PLANT CELL 2024;36:540-558. [PMID: 37956052 PMCID: PMC10896294 DOI: 10.1093/plcell/koad286] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/13/2023] [Revised: 10/19/2023] [Accepted: 10/19/2023] [Indexed: 11/15/2023]
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Long Y, Han X, Meng X, Xu P, Tao F. A robust yeast chassis: comprehensive characterization of a fast-growing Saccharomyces cerevisiae. mBio 2024;15:e0319623. [PMID: 38214535 PMCID: PMC10865977 DOI: 10.1128/mbio.03196-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Accepted: 12/07/2023] [Indexed: 01/13/2024]  Open
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Martin MR, Bittremieux W, Hassoun S. Molecular structure discovery for untargeted metabolomics using biotransformation rules and global molecular networking. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.02.04.578795. [PMID: 38370723 PMCID: PMC10871291 DOI: 10.1101/2024.02.04.578795] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/20/2024]
43
Wang X, Sun X, Wang F, Wei C, Zheng F, Zhang X, Zhao X, Zhao C, Lu X, Xu G. Enhancing Metabolome Annotation by Electron Impact Excitation of Ions from Organics-Molecular Networking. Anal Chem 2024;96:1444-1453. [PMID: 38240194 DOI: 10.1021/acs.analchem.3c03443] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2024]
44
Han B, Wu J, Wei Q, Liu F, Cui L, Rueppell O, Xu S. Life-history stage determines the diet of ectoparasitic mites on their honey bee hosts. Nat Commun 2024;15:725. [PMID: 38272866 PMCID: PMC10811344 DOI: 10.1038/s41467-024-44915-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2023] [Accepted: 01/04/2024] [Indexed: 01/27/2024]  Open
45
Rigel N, Li DW, Brüschweiler R. COLMARppm: A Web Server Tool for the Accurate and Rapid Prediction of 1H and 13C NMR Chemical Shifts of Organic Molecules and Metabolites. Anal Chem 2024;96:701-709. [PMID: 38157361 PMCID: PMC10794995 DOI: 10.1021/acs.analchem.3c03677] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Revised: 10/15/2023] [Accepted: 11/20/2023] [Indexed: 01/03/2024]
46
Tan Y, Li Y, Ren L, Fu H, Li Q, Liu S. Integrative proteome and metabolome analyses reveal molecular basis underlying growth and nutrient composition in the Pacific oyster, Crassostrea gigas. J Proteomics 2024;290:105021. [PMID: 37838097 DOI: 10.1016/j.jprot.2023.105021] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2023] [Revised: 09/28/2023] [Accepted: 10/03/2023] [Indexed: 10/16/2023]
47
Zhao D, Zhuang W, Wang Y, Xu X, Qiao L. In-depth mass spectrometry analysis of rhGH administration altered energy metabolism and steroidogenesis. Talanta 2024;266:125069. [PMID: 37574608 DOI: 10.1016/j.talanta.2023.125069] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2023] [Revised: 08/05/2023] [Accepted: 08/09/2023] [Indexed: 08/15/2023]
48
Zhang L, Zheng Z, Huang H, Fu Y, Chen T, Liu C, Yi Q, Lin C, Zeng Y, Ou Q, Zeng Y. Multi-omics reveals deoxycholic acid modulates bile acid metabolism via the gut microbiota to antagonize carbon tetrachloride-induced chronic liver injury. Gut Microbes 2024;16:2323236. [PMID: 38416424 PMCID: PMC10903553 DOI: 10.1080/19490976.2024.2323236] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/21/2023] [Accepted: 02/21/2024] [Indexed: 02/29/2024]  Open
49
Peng HR, Qiu JQ, Zhou QM, Zhang YK, Chen QY, Yin YQ, Su W, Yu S, Wang YT, Cai Y, Gu MN, Zhang HH, Sun QQ, Hu G, Wu YW, Liu J, Chen S, Zhu ZJ, Song XY, Zhou JW. Intestinal epithelial dopamine receptor signaling drives sex-specific disease exacerbation in a mouse model of multiple sclerosis. Immunity 2023;56:2773-2789.e8. [PMID: 37992711 DOI: 10.1016/j.immuni.2023.10.016] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2023] [Revised: 08/22/2023] [Accepted: 10/27/2023] [Indexed: 11/24/2023]
50
Rao H, Liu C, Wang A, Ma C, Xu Y, Ye T, Su W, Zhou P, Gao WQ, Li L, Ding X. SETD2 deficiency accelerates sphingomyelin accumulation and promotes the development of renal cancer. Nat Commun 2023;14:7572. [PMID: 37989747 PMCID: PMC10663509 DOI: 10.1038/s41467-023-43378-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2023] [Accepted: 11/07/2023] [Indexed: 11/23/2023]  Open
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