Publications
Publications
Feature-based molecular networking in the GNPS analysis environment
Auto-deconvolution and molecular networking of gas chromatography - mass spectrometry data.
Aksenov AA, Laponogov I, Zhang Z, Doran SLF, Belluomo I, Veselkov D, Bittremieux W, Nothias LF, Nothias-Esposito M, Maloney KN, Misra BB, Melnik AV, Smirnov A, Du X, Jones KL 2nd, Dorrestein K, Panitchpakdi M, Ernst M, van der Hooft JJJ, Gonzalez M, Carazzone C, Amézquita A, Callewaert C, Morton JT, Quinn RA, Bouslimani A, Orio AA, Petras D, Smania AM, Couvillion SP, Burnet MC, Nicora CD, Zink E, Metz TO, Artaev V, Humston-Fulmer E, Gregor R, Meijler MM, Mizrahi I, Eyal S, Anderson B, Dutton R, Lugan R, Boulch PL, Guitton Y, Prevost S, Poirier A, Dervilly G, Le Bizec B, Fait A, Persi NS, Song C, Gashu K, Coras R, Guma M, Manasson J, Scher JU, Barupal DK, Alseekh S, Fernie AR, Mirnezami R, Vasiliou V, Schmid R, Borisov RS, Kulikova LN, Knight R, Wang M, Hanna GB, Dorrestein PC, Veselkov K.. Nat Biotechnol. 2021 Feb;39(2):169-173. doi: 10.1038/s41587-020-0700-3. Epub 2020 Nov 9. PMID: 33169034; PMCID: PMC7971188.
Chemically informed analyses of metabolomics mass spectrometry data with Qemistree.
Tripathi A, Vázquez-Baeza Y, Gauglitz JM, Wang M, Dührkop K, Nothias-Esposito M, Acharya DD, Ernst M, van der Hooft JJJ, Zhu Q, McDonald D, Brejnrod AD, Gonzalez A, Handelsman J, Fleischauer M, Ludwig M, Böcker S, Nothias LF, Knight R, Dorrestein PC.. Nat Chem Biol. 2021 Feb;17(2):146-151. doi: 10.1038/s41589-020-00677-3. Epub 2020 Nov 16. PMID: 33199911; PMCID: PMC8189545.
Plasma metabolites to profile pathways in noncommunicable disease multimorbidity
Pietzner M, Stewart ID, Raffler J, Khaw KT, Michelotti GA, Kastenmüller G, Wareham NJ, Langenberg C.. Nat Med. 2021 Mar;27(3):471-479. doi: 10.1038/s41591-021-01266-0. Epub 2021 Mar 11. PMID: 33707775; PMCID: PMC8127079.
Genome-Scale Metabolic Modeling of the Human Microbiome in the Era of Personalized Medicine
Heinken A, Basile A, Hertel J, Thinnes C, Thiele I. Annu Rev Microbiol. 2021 Jul;27:146-151.doi: 10.1146/annurev-micro-060221-012134. Epub ahead of print. PMID: 34314593.
An Integrated Molecular Atlas of Alzheimer's Disease
Wörheide MA, Krumsiek J, Nataf S, Nho K, Greenwood AK, Wu T, Huynh K, Weinisch P, Römisch-Margl W, Lehner N, The AMP-AD Consortium, The Alzheimer’s Disease Neuroimaging Initiative, The Alzheimer’s Disease Metabolomics Consortium, Baumbach J, Meikle PJ, Saykin AJ, Doraiswamy PM, van Duijn C, Suhre K, Kaddurdah-Daouk R, Kastenmüller G, Arnold M. medRxiv. 2021 Sep 22. doi: https://doi.org/10.1101/2021.09.14.21263565.
Integration of constraint-based modeling with fecal metabolomics reveals large deleterious effects of Fusobacterium spp. on community butyrate production
Hertel J, Heinken A, Martinelli F, Thiele I. Gut Microbes. 2021 Jan-Dec; 13(1):1-23.doi: 10.1080/19490976.2021.1915673. PMID: 34057024.
SGI: Automatic clinical subgroup identification in omics datasets
Buyukozkan M, Suhre K, Krumsiek J. Bioinfomatics. 2021 Sep 16;btab656. doi: 10.1093/bioinformatics/btab656. PMID: 34529048.
Identification of plasma proteins relating to brain neurodegeneration and vascular pathology in cognitively normal individuals
Shi L, Buchanan CR, Cox SR, Hillary RF, Marioni RE, Campbell A, Hayward C, Stolicyn A, Whalley HC, Harris MA, Waymont J, Waiter G, Backhouse E, Wardlaw JM, Steele D, Mcintoch A, Lovestone S, Buckley NJ, Nevado-Holgado AJ. Alzheimers Dement (Amst). 2021 Sep 27; 13(1)e12240. doi: 10.1002/dad2.12240. PMID: 34604499.
Advances in constraint-based modelling of microbial communities
Heinken A, Basile A, Thiele I. Curr Opi Sys Biol. 2021 Sep 27;100346. doi: https://doi.org/10.1016/j.coisb.2021.05.007.
Causal inference on microbiome-metabolome relations via in silico in vivo association pattern analyses
Hertel J, Heinken A, Thiele I. bioRxiv. 2021 Mar 16. doi: https://doi.org/10.1101/2021.03.15.435397
Metabolic modelling reveals broad changes in gut microbial metabolism in inflammatory bowel disease patients with dysbiosis
Heinken A, Hertel J, Thiele I. npj Syst Biol Appl. 2021 May 6;7(19). doi: https://doi.org/10.1038/s41540-021-00178-6.
foodMASST: A Mass Spectrometry Search Tool for Foods and Beverages.
West KA, Schmid R, Gauglitz JM, Wang M, Dorrestein PC. foodMASST a mass spectrometry search tool for foods and beverages. NPJ Sci Food. 2022 Apr 20;6(1):22. doi: 10.1038/s41538-022-00137-3. PMID: 35444218; PMCID: PMC9021190.
maplet: An extensible R toolbox for modular and reproducible omics pipelines
Chetnik K, Benedetti E, Gomari DP, Schweickart A, Batra R, Buyukozkan M, Wang Z, Arnold M, Zierer J, Suhre K, Krumsiek J. maplet: an extensible R toolbox for modular and reproducible metabolomics pipelines. Bioinformatics. 2022 Jan 27;38(4):1168-1170. doi: 10.1093/bioinformatics/btab741. PMID: 34694386; PMCID: PMC8796365.
Towards Standards for Human Fecal Sample Preparation in Targeted and Untargeted LC-HRMS Studies
Hosseinkhani F, Dubbelman A-C, Karu N, Harms AC, Hankemeier T. Metabolites. 2021 Jun 7; 11(6):364. doi: 10.3390/metabo11060364.
Longitudinal analysis of UK Biobank participants suggests sex and APOE-dependent alterations in energy metabolism in development of dementia
Liu J, Amin N, Sproviero W, Arnold M, Batra R, Bonnechere B, Chiou Y-J, Fernandes M, Krumsiek J, Newby D, Nho K, Kim JP, Saykin AJ, Shi L, Winchester L, Yang Y, Nevado-Holgado AJ, Kastenmüller, Kaddurah-Daouk R, van Duijn CM. medRxiv. 2022 doi: https://doi.org/10.1101/2022.02.25.22271530.
Integration of proteomics and metabolomics – insights into inflammation, metabolic dysregulation, and vascular aspects in AD
Borkowski K, Seyfried NT, Arnold M, Lah JJ, Levey AI, Hales CM, Dammer EB, Blach C, Louie G, Kaddurah-Daouk R, Newman J, Alzheimers Disease Metabolomics Consortiums. 2022 doi: https://doi.org/10.1101/2022.02.18.22271208.
A comparison of six DNA extraction protocols for 16S, ITS, and shotgun metagenomic sequencing of microbial communities
Shaffer JP, Carpenter CS, Martino C, Salido RA, Minich JJ, Bryant M, Sanders K, Schwartz T, Humphrey G, Swafford AD, Knight R. A comparison of six DNA extraction protocols for 16S, ITS and shotgun metagenomic sequencing of microbial communities. Biotechniques. 2022 Jun;73(1):34-46. doi: 10.2144/btn-2022-0032. Epub 2022 Jun 17. PMID: 35713407; PMCID: PMC9361692.
GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser
Petras D, Phelan VV, Acharya D, Allen AE, Aron AT, Bandeira N, Bowen BP, Belle-Oudry D, Boecker S, Cummings DA, Deutsch JM, Fahy E, Garg N, Gregor R, Handelsman J, Navarro-Hoyos M, Jarmusch AK, Jarmusch SA, Louie, K, Maloney KN, Marty MT, Meijler MM, Mizrahi I, Neve RL, Northen TR, Molina-Santiago C, Panitchpakdi M, Pullman B, Puri AW, Schmid R, Subramaniam S, Thukral M, Vasquez-Castro F, Dorrestein PC, Wang, M. 2022. Nature Methods, 19(2), 134-136. https://doi.org/10.1038/s41592-021-01339-5.
A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities
Shaffer JP, Marotz C, Belda-Ferre P, Martino C, Wandro S, Estaki M, Salido RA, Carpenter CS, Zaramela LS, Minich JJ, Bryant M, Sanders K, Fraraccio S, Ackermann G, Humphrey G, Swafford AD, Miller-Montgomery S, Knight R. BioTechniques. 2021, 70(3). doi: https://doi.org/10.2144/btn-2020-0153.
Dietary Regulation of Gut-Brain Axis in Alzheimer’s Disease: Importance of Microbiota Metabolites
Frausto DM, Forsyth CB, Keshavarzain A, Voight RM. 2021. Front. Neurosci. doi: https://doi.org/10.3389/fnins.2021.736814.
Quick-start infrastructure for untargeted metabolomics analysis in GNPS
Leao TF, Bauermeister A, Elijah EO, Gentry EC, Husband M, Oliverira MF, Banderia N, Wang M, Dorrestein PC. Nature Metabolism, 3(7): 880-882. doi: 10.1038/s42255-021-00429-0 .
Serum metabolomic biomarkers of perceptual speed in cognitively normal and mildly impaired subjects with fasting state stratification
Borkowski K, Taha AY, Pedersen TL, De Jager PH, Bennett DA, Arnold M, Kaddurdah-Daouk R, Newman JW. 2021. Scientific Reports, 11:18964. doi: https://doi.org/10.1038/s41598-021-98640-2.
Association of plasma and CSF cytochrome P450, soluble epoxide hydrolase, and ethanolamide metabolism with Alzheimer’s disease
Borkowski K, Pedersen TL, Seyfried NT, Lah JL, Level AI, Hales CM, Dammer EB, Blach C, Louie G, Kaddurdah-Daouk R, Newman, JW, Alzheimers Disease Metabolomics Consortium. Nature Alzheimer’s Research & Therapy, 13(149). doi: 10.1186/s13195-021-00893-6 .
GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser
Petra D, Phelan VV, Acharya D, Allen AE, Aron AT, Bandeira N, Bowen BP, Belle-Oudry D, Boecker S, Cummings DA, Deutsch JM, Fahy E, Garg N, Gregor R, Handelsman, Navarro-Hoyos, M, Jaarmusch AK, Jarmusch SA, Louie K, Maloney KN, Mart MT, Meijler MM, Mizrahi I, Neve RL, Northen TR, Molina-Santiago C, Panitchpakdi M, Pullman B, Puri AW, Schmid R, Subramaniam S, Thukral M, Vasquez-Castro F, Dorrestein PC, Wang M. 2022. Nature Methods, 19, 134-136. doi: https://doi.org/10.1038/s41592-021-01339-5.
Reduced Independence in Daily Living Is Associated with the Gut Microbiome in People with HIV and HCV
Taylor BC, Weldon KC, Ellis RJ, Franklin RJ, McDonald D, Humphrey D, Humphrey G, Bryant M, Toronczak J, Schwartz T, Iudicello J, Heaton R, Grant I, Gianella S, Letendre S, Swafford A, Dorrestein PC, Knight R. 2020. American Society for Microbiology, 5(5). doi: https://doi.org/10.1128/mSystems.00528-20
Angiopoietin 2 Is Associated with Vascular Necroptosis Induction in Coronavirus Disease 2019 Acute Respiratory Distress Syndrome
Price DR , Benedetti E, Hoffman KL, Gomez-Escobar L, Alvarez-Mulett S, Capili A, Sarwath H, Parkhurst CN, Lafond E, Weidman K, Ravishankar A, Cheong JG, Batra R, Büyüközkan M, Chetnik K, Easthausen I, Schenck EJ, Racanelli AC, Reed HO, Laurence J, Josefowicz SZ, Lief L, Choi ME, Schmidt F, Borczuk AC, Choi AMK, Krumsiek J, Rafii S,. 2022. Am J Patho, 192, 7 1001-1015. doi:10.1016/j.ajpath.2022.04.002..
The landscape of metabolic brain alterations in Alzheimer's disease
Batra R, Arnold M, Wörheide MA, Allen M, Wang X, Blach C, Levey AI, Seyfried NT, Erktekin-Taner N, Bennet DA, Kastenmüller G, Kaddurah-Daouk RF. 2022. Alzheimer’s Dement, 1-19. doi:10.1002/alz.12714.
Metabolomic and inflammatory signatures of symptom dimensions in major depression
Brydges CR, Bhattacharyya S, Mahmoudian Dehkordi S, Milaneschi Y, Penninx B, Jansen R, Kristal BS, Han X, Arnold M, Kastenmüller G, Bekhbat M, Mayberg HS, Craighead WE, Rush AJ, Fiehn O, Dunlop BW, Kaddurah-Daouk RF. 2022. Brain, Behavior, and Immunity, 102, 42-52. doi: 10.1016/j.bbi.2022.02.003
Infection and inflammation: New perspectives on Alzheimer's disease
Whitson HE, Colton C, El Khoury J, Gate D, Goate A, Heneka MT, Kaddurah-Daouk R, Klein RS, Shinohara ML, Sisodia S, Spudich SS, Stevens B, Tanzi R, Ting JP, Garden G, Aiello A, Chiba-Falek O, Heitman J, Johnson KG, Luftig M, Moseman A, Rawls J, Shinohara ML, Swanstrom R, Terrando N. 2022. Brain, Behavior, & Immunity, 22, 100462. doi:10.1016/j.bbih.2022.100462.
MiMeDB: the Human Microbial Metabolome Database.
Wishart DS, Oler E, Peters H, Guo A, Girod S, Han S, Saha S, Lui VW, LeVatte M, Gautam V, Kaddurah-Daouk R, Karu N. Nucleic Acids Research. 2023 Jan;51(D1):D611-D620. DOI: 10.1093/nar/gkac868. PMID: 36215042; PMCID: PMC9825614.
DEMETER: Efficient simultaneous curation of genome-scale reconstructions guided by experimental data and refined gene annotations
Heinken A, Magnúsdóttir S, Fleming RMT, Thiele I. 2021. Bioinformatics, 2;37(21):3974-5, doi:10.1093/bioinformatics/btab622. Epub ahead of print. PMID: 34473240; PMCID: PMC8570805.
MetaboAnnotator: an efficient toolbox to annotate metabolites in genome-scale metabolic reconstructions.
Thiele I, Preciat G, Fleming RMT. MetaboAnnotator: an efficient toolbox to annotate metabolites in genome-scale metabolic reconstructions. Bioinformatics. 2022 Oct 14;38(20):4831-4832. doi: 10.1093/bioinformatics/btac596. PMID: 36047841; PMCID: PMC9563688.
Comprehensive genetic analysis of the human lipidome identifies loci associated with lipid homeostasis with links to coronary artery disease
Cadby G, Giles C, Melton PE, Huynh K, Mellett NA, Duong T, Nguyen A, Cinel M, Smith A, Olshansky G, Wang T, Brozynska M, Inouye M, McCarthy NS, Ariff A, Hung J, Hui J, Beilby J, Dubé MP, Watts GF, Shah S, Wray NR, Lim WLF, Chatterjee P, Martins I, Laws SM, Porter T, Vacher M, Bush AI, Rowe CC, Villemagne VL, Ames D, Masters CL, Taddei K, Arnold M, Kastenmüller G, Nho K, Saykin AJ, Han X, Kaddurah-Daouk R, Martins RN, Blangero J, Meikle PJ, Moses EK. 2022. Nat Commun. 2022 Jun 6;13(1):3124. doi: 10.1038/s41467-022-30875-7. PMID: 35668104; PMCID: PMC9170690.
Effects of a ketogenic and low-fat diet on the human metabolome, microbiome, and foodome in adults at risk for Alzheimer's disease
Dilmore, AH, Martino, C, Neth, BJ, West KA, Zemln J, Rahman G, Panitchpakdi M, Meehan MJ, Weldon KC, Blach C, Schimmel L, Kaddurdah-Daouk R, Dorrestein PC, Knight R, Craft, S, Alzheimer Gut Microbiome Project. Alzheimer’s Dement. 2023; 1-12. doi: 10.1002/alz.1300710.1093/bioinformatics/btac596.
Large-scale tandem mass spectrum clustering using fast nearest neighbor searching
Bittremieux W, Laukens K, Noble WS, Dorrestein PC. Large-scale tandem mass spectrum clustering using fast nearest neighbor searching. Rapid Commun Mass Spectrom. 2021 Jun 25:e9153. doi: 10.1002/rcm.9153. Epub ahead of print. PMID: 34169593; PMCID: PMC8709870.
The critical role that spectral libraries play in capturing the metabolomics community knowledge
Bittremieux W, Wang M, Dorrestein PC. The critical role that spectral libraries play in capturing the metabolomics community knowledge. Metabolomics. 2022 Nov 19;18(12):94. doi: 10.1007/s11306-022-01947-y. PMID: 36409434.
Integrative metabolomics-genomics approach reveals key metabolic pathways and regulators of Alzheimer's disease
Horgusluoglu E, Neff R, Song WM, Wang M, Wang Q, Arnold M, Krumsiek J, Galindo-Prieto B, Ming C, Nho K, Kastenmüller G, Han X, Baillie R, Zeng Q, Andrews S, Cheng H, Hao K, Goate A, Bennett DA, Saykin AJ, Kaddurah-Daouk R, Zhang B; Alzheimer’s Disease Neuroimaging Initiative (ADNI); Alzheimer Disease Metabolomics Consortium. Integrative metabolomics-genomics approach reveals key metabolic pathways and regulators of Alzheimer’s disease. Alzheimers Dement. 2022 Jun;18(6):1260-1278. doi: 10.1002/alz.12468. Epub 2021 Nov 10. PMID: 34757660; PMCID: PMC9085975.
SGI: automatic clinical subgroup identification in omics datasets
Buyukozkan M, Suhre K, Krumsiek J. SGI: automatic clinical subgroup identification in omics datasets. Bioinformatics. 2022 Jan 3;38(2):573-576. doi: 10.1093/bioinformatics/btab656. PMID: 34529048; PMCID: PMC8723155.
A gut-derived metabolite alters brain activity and anxiety behaviour in mice
Needham BD, Funabashi M, Adame MD, Wang Z, Boktor JC, Haney J, Wu WL, Rabut C, Ladinsky MS, Hwang SJ, Guo Y, Zhu Q, Griffiths JA, Knight R, Bjorkman PJ, Shapiro MG, Geschwind DH, Holschneider DP, Fischbach MA, Mazmanian SK. A gut-derived metabolite alters brain activity and anxiety behaviour in mice. Nature. 2022 Feb;602(7898):647-653. doi: 10.1038/s41586-022-04396-8. Epub 2022 Feb 14. PMID: 35165440; PMCID: PMC9170029.
Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy
Zhu Q, Huang S, Gonzalez A, McGrath I, McDonald D, Haiminen N, Armstrong G, Vázquez-Baeza Y, Yu J, Kuczynski J, Sepich-Poore GD, Swafford AD, Das P, Shaffer JP, Lejzerowicz F, Belda-Ferre P, Havulinna AS, Méric G, Niiranen T, Lahti L, Salomaa V, Kim HC, Jain M, Inouye M, Gilbert JA, Knight R. Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy. mSystems. 2022 Apr 26;7(2):e0016722. doi: 10.1128/msystems.00167-22. Epub 2022 Apr 4. PMID: 35369727; PMCID: PMC9040630.
Variational autoencoders learn transferrable representations of metabolomics data
Gomari DP, Schweickart A, Cerchietti L, Paietta E, Fernandez H, Al-Amin H, Suhre K, Krumsiek J. Variational autoencoders learn transferrable representations of metabolomics data. Commun Biol. 2022 Jun 30;5(1):645. doi: 10.1038/s42003-022-03579-3. PMID: 35773471; PMCID: PMC9246987.
Mass spectrometry-based metabolomics in microbiome investigations
Bauermeister A, Mannochio-Russo H, Costa-Lotufo LV, Jarmusch AK, Dorrestein PC. Mass spectrometry-based metabolomics in microbiome investigations. Nat Rev Microbiol. 2022 Mar;20(3):143-160. doi: 10.1038/s41579-021-00621-9. Epub 2021 Sep 22. PMID: 34552265; PMCID: PMC9578303.
High-confidence structural annotation of metabolites absent from spectral libraries
Hoffmann MA, Nothias LF, Ludwig M, Fleischauer M, Gentry EC, Witting M, Dorrestein PC, Dührkop K, Böcker S. High-confidence structural annotation of metabolites absent from spectral libraries. Nat Biotechnol. 2022 Mar;40(3):411-421. doi: 10.1038/s41587-021-01045-9. Epub 2021 Oct 14. PMID: 34650271; PMCID: PMC8926923.
Optimizing UniFrac with OpenACC Yields Greater Than One Thousand Times Speed Increase
Sfiligoi I, Armstrong G, Gonzalez A, McDonald D, Knight R. Optimizing UniFrac with OpenACC Yields Greater Than One Thousand Times Speed Increase. mSystems. 2022 Jun 28;7(3):e0002822. doi: 10.1128/msystems.00028-22. Epub 2022 May 31. PMID: 35638356; PMCID: PMC9239203.
Microbiota succession throughout life from the cradle to the grave
Martino C, Dilmore AH, Burcham ZM, Metcalf JL, Jeste D, Knight R. Microbiota succession throughout life from the cradle to the grave. Nat Rev Microbiol. 2022 Dec;20(12):707-720. doi: 10.1038/s41579-022-00768-z. Epub 2022 Jul 29. PMID: 35906422.
EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets
Cantrell K, Fedarko MW, Rahman G, McDonald D, Yang Y, Zaw T, Gonzalez A, Janssen S, Estaki M, Haiminen N, Beck KL, Zhu Q, Sayyari E, Morton JT, Armstrong G, Tripathi A, Gauglitz JM, Marotz C, Matteson NL, Martino C, Sanders JG, Carrieri AP, Song SJ, Swafford AD, Dorrestein PC, Andersen KG, Parida L, Kim HC, Vázquez-Baeza Y, Knight R. EMPress Enables Tree-Guided, Interactive, and Exploratory Analyses of Multi-omic Data Sets. mSystems. 2021 Mar 16;6(2):e01216-20. doi: 10.1128/mSystems.01216-20. PMID: 33727399; PMCID: PMC8546999.
Indoxyl sulfate, a gut microbiome-derived uremic toxin, is associated with psychic anxiety and its functional magnetic resonance imaging-based neurologic signature
Brydges CR, Fiehn O, Mayberg HS, Schreiber H, Dehkordi SM, Bhattacharyya S, Cha J, Choi KS, Craighead WE, Krishnan RR, Rush AJ, Dunlop BW, Kaddurah-Daouk R; Mood Disorders Precision Medicine Consortium. Indoxyl sulfate, a gut microbiome-derived uremic toxin, is associated with psychic anxiety and its functional magnetic resonance imaging-based neurologic signature. Sci Rep. 2021 Oct 25;11(1):21011. doi: 10.1038/s41598-021-99845-1. PMID: 34697401; PMCID: PMC8546034.
Interplay of Metabolome and Gut Microbiome in Individuals With Major Depressive Disorder vs Control Individuals
Amin A, Liu J, Bonnechere B, MahmoudianDehkordi S, Arnold M, Batra R, Chiou Y-J, Fernandes M, Ikram MA, Kraaij R, Krumsiek J, Newby D, Nho K, Radjabzadeh D, Saykin AJ, Shi L, Sproviero S, Winchester W, Yang Y, Nevado-Holgado AJ, Kastenmüller G, Kaddurah-Daouk R, van Duijn CM. JAMA Psychiatry. 2023 Published online April 19, 2023. doi:10.1001/jamapsychiatry.2023.0685
Genome-scale metabolic reconstruction of 7,302 human microorganisms for personalized medicine
Heinken A, Hertel J, Acharya G, Ravcheev DA, Nyga M, Okpala OE, Hogan M, Magnúsdóttir S, Martinelli F, Nap B, Preciat G, Edirisinghe JN, Henry CS, Fleming RMT, Thiele I. Genome-scale metabolic reconstruction of 7,302 human microorganisms for personalized medicine. Nat Biotechnol. 2023 Jan 19. doi: 10.1038/s41587-022-01628-0. Epub ahead of print. PMID: 36658342.
Circulating metabolites modulated by diet are associated with depression
van der Spek A, Stewart ID, Kühnel B, Pietzner M, Alshehri T, Gauß F, Hysi PG, MahmoudianDehkordi S, Heinken A, Luik AI, Ladwig K-H, Kastenmüller G, Menni C, Hertel J, Ikram MA, Mutsert R, Suhre K, Gieger C, Strauch K, Völzke H, Meitinger T, Mangino M, Flaquer A, Waldenberger M, Peters A, Thiele I, Kaddurah-Daouk R, Dunlop BW, Rosendaal FR, Wareham NJ, Spector TD, Junze S, Grabe HJ, Mook-Kanamori DO, Langenberg C, van Duin CM, & Amin N. Molecular Psychiatry. 2023
JAMA Psychiatry. 2023 Published online JUly 26, 2023. doi.org/10.1038/s41380-023-02180-2
JAMA Psychiatry. 2023 Published online JUly 26, 2023. doi.org/10.1038/s41380-023-02180-2