{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T05:00:43Z","timestamp":1790830843353,"version":"4.1.0"},"reference-count":78,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T00:00:00Z","timestamp":1790812800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"abstract":"<jats:sec>\n                    <jats:title>Background<\/jats:title>\n                    <jats:p>Microorganisms play a pivotal role in health and disease, yet microbial research is hindered by fragmented data, heterogeneous knowledge representation, and a lack of integrated analytical tools. Existing databases and knowledge graphs often focus narrowly on genomic information, leaving critical metabolomic and literature-based associations underdeveloped.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>We developed the Intelligent Microbial Application Platform (IMicAP), an AI-driven, open-access web platform that integrates 12 microbial databases and over 35 million articles. IMicAP delivers 5 core modules: (1) Knowledge Query module for rapid data retrieval; (2) Knowledge Graph module for multi-hop reasoning and hypothesis generation; (3) Intelligent Question-Answering module for professional natural language dialogue in the field of microbiology; (4) Genome Browser module for genomic visualization; and (5) 16S rRNA Sequencing Analysis module for zero-code microbial bioinformatics analysis. Using curated microbe-disease and microbe-small molecule relations extracted with biomedical language models, IMicAP enables context-aware exploration of microbial relations.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Conclusion<\/jats:title>\n                    <jats:p>\n                      IMicAP (available at:\n                      <jats:uri>https:\/\/www.imicap.com:8443<\/jats:uri>\n                      ) is the first comprehensive, open-access, AI-powered microbial platform designed to bridge the gap between fragmented microbial data and actionable biological insights. It directly addresses 4 key limitations in existing resources: (1) Fragmented analysis without integrated workflows; (2) Narrow disease scope covering only one or two disease types; (3) Incomplete knowledge from restricted data sources; and (4) neglect of metabolomic information. IMicAP serves as a versatile resource for advancing microbiome research and translational discoveries. Future development focus on expanding microbial coverage, enhancing reasoning scalability, and evolving toward a dual knowledge-and-data-driven architecture to further support mechanistic discovery in microbial systems biology.\n                    <\/jats:p>\n                  <\/jats:sec>","DOI":"10.3389\/fmicb.2026.1955928","type":"journal-article","created":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T04:47:55Z","timestamp":1790830075000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":0,"title":["IMicAP: an intelligent microbial application platform for knowledge-driven microbiome research"],"prefix":"10.3389","volume":"17","author":[{"given":"Chaoyu","family":"Zhu","sequence":"first","affiliation":[{"name":"Intelligence Medicine Institute, Fudan University","place":["Shanghai, China"]},{"name":"Shanghai Lishan Biotech Co., Ltd.","place":["Shanghai, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xing","family":"Wang","sequence":"additional","affiliation":[{"name":"Shanghai Lishan Biotech Co., Ltd.","place":["Shanghai, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lihui","family":"Feng","sequence":"additional","affiliation":[{"name":"Center for Gut Microbiome, Metabolism and Immunity, Shanxi Bethune Hospital, Shanxi Academy of Medical Sciences, Tongji Shanxi Hospital, Third Hospital of Shanxi Medical University","place":["Taiyuan, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mingzhang","family":"Xu","sequence":"additional","affiliation":[{"name":"Avon Old Farms School","place":["Avon, CT, United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhengkun","family":"Huang","sequence":"additional","affiliation":[{"name":"Shanghai Lishan Biotech Co., Ltd.","place":["Shanghai, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Weijie","family":"Chen","sequence":"additional","affiliation":[{"name":"Intelligence Medicine Institute, Fudan University","place":["Shanghai, China"]},{"name":"Shanghai Lishan Biotech Co., Ltd.","place":["Shanghai, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lei","family":"Liu","sequence":"additional","affiliation":[{"name":"Intelligence Medicine Institute, Fudan University","place":["Shanghai, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2026,10,1]]},"reference":[{"key":"ref1","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1002\/cpbi.27","article-title":"Searching online mendelian inheritance in man (OMIM): a knowledgebase of human genes and genetic phenotypes","volume":"58","author":"Amberger","year":"2017","journal-title":"Curr. 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