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The database comprises phenotypical and ecological traits of microorganisms, which have been verified by independent manual annotations. This effort has been possible by the help of a community of volunteer students worldwide who were trained in manual curation of microbiology data. To summarize this information, we have built an interactive browser that makes the database accessible to everyone, including non-bioinformaticians. We used the TMD data to analyse microbiome samples from different projects such as MetaSUB, TARA Oceans, Human Microbiome Project, and Sponge Microbiome Project, showcasing the utility of TMD. Furthermore, we compare our microbial annotations with annotations collected by artificial intelligence (AI) and demonstrate that despite the high speed of AI in reviewing and collecting microbial data, annotation requires domain knowledge and therefore manual curation. Collectively, TMD provides a unique source of information that can help to interpret microbiome data and uncover biological associations.<\/jats:p>\n               <jats:p>Database URL: www.themicrobedirectory.com\/<\/jats:p>","DOI":"10.1093\/database\/baaf060","type":"journal-article","created":{"date-parts":[[2025,9,25]],"date-time":"2025-09-25T14:25:49Z","timestamp":1758810349000},"source":"Crossref","is-referenced-by-count":0,"title":["The Microbe Directory: a centralized database for biological interpretation of microbiome data"],"prefix":"10.1093","volume":"2025","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4115-034X","authenticated-orcid":false,"given":"Maria A","family":"Sierra","sequence":"first","affiliation":[{"name":"Tri\u2013Institutional Computational Biology and Medicine Program, Weill Cornell Medicine , 445 East 69th Street, Room 205, New York, NY 10021 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Krista","family":"Ryon","sequence":"additional","affiliation":[{"name":"Weill Cornell Medicine Department of Physiology and Biophysics, , 1300 York Avenue, Rm E509, New York, NY 10065 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mohith R","family":"Arikatla","sequence":"additional","affiliation":[{"name":"Weill Cornell Graduate School of Medical Sciences , 1300 York Ave. Box 65, New York, NY 10065 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Radwa","family":"Elshafey","sequence":"additional","affiliation":[{"name":"Hunter College, City University of New York , 695 Park Avenue, New York, NY 10065 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hardik","family":"Bhaskar","sequence":"additional","affiliation":[{"name":"Hunter College, City University of New York , 695 Park Avenue, New York, NY 10065 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jacqueline","family":"Proszynski","sequence":"additional","affiliation":[{"name":"Weill Cornell Medicine Department of Physiology and Biophysics, , 1300 York Avenue, Rm E509, New York, NY 10065 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chandrima","family":"Bhattacharya","sequence":"additional","affiliation":[{"name":"Tri\u2013Institutional Computational Biology and Medicine Program, Weill Cornell Medicine , 445 East 69th Street, Room 205, New York, NY 10021 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Heba","family":"Shaaban","sequence":"additional","affiliation":[{"name":"Joan & Sanford I. Weill Medical College of Cornell University , 1300 York Ave. New York, NY 10065 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"David C","family":"Danko","sequence":"additional","affiliation":[{"name":"Tri\u2013Institutional Computational Biology and Medicine Program, Weill Cornell Medicine , 445 East 69th Street, Room 205, New York, NY 10021 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pradeep","family":"Ambrose","sequence":"additional","affiliation":[{"name":"Weill Cornell Medicine Department of Physiology and Biophysics, , 1300 York Avenue, Rm E509, New York, NY 10065 ,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sarah A","family":"Spaulding","sequence":"additional","affiliation":[{"name":"Institute of Arctic and Alpine Research, University of Colorado Boulder , 4001 Discovery Dr, Boulder, CO 80303 ,","place":["United 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