{"doi":"10.1101/2024.10.10.617697","title":"MicrobiomeKG: Bridging Microbiome Research and Host Health Through Knowledge Graphs","abstract":"<jats:title>Abstract</jats:title>\n                <jats:p>The microbiome represents a complex community of trillions of microorganisms residing in various body parts, and plays critical roles in maintaining host health and well-being. Understanding the interactions between microbiota and host offers valuable insights into potential strategies to promote health, including microbiome-targeted interventions. We have created MicrobiomeKG, a Knowledge Graph for microbiome research, bridging various taxa and microbial pathways with host health. This novel knowledge graph derives algorithmically-generated knowledge assertions from the supplemental tables supporting published microbiome papers, and is deployed for integrative analysis and hypothesis generation via the Biomedical Data Translator ecosystem.</jats:p>","journal":null,"year":null,"id":626588,"datarank":0.31191623125197543,"base_score":2.0794415416798357,"endowment":2.0794415416798357,"self_citation_contribution":0.31191623125197543,"citation_network_contribution":0.0,"self_endowment_contribution":0.31191623125197543,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":7,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":null,"is_data_producer":false,"deposit_databanks":null,"is_oa":false,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":null,"fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":990814,"name":"Amy K. Glen","orcid":"0000-0003-3691-2290","position":1,"is_corresponding":false},{"id":6464,"name":"Gustavo Glusman","orcid":"0000-0001-8060-5955","position":2,"is_corresponding":false},{"id":1620867,"name":"Skye L. Goetz","orcid":"0009-0007-8373-2352","position":0,"is_corresponding":false}],"reference_count":0,"raw_metadata":{"has_enrichment":true,"resolved":true,"title":"MicrobiomeKG: Bridging Microbiome Research and Host Health Through Knowledge Graphs","abstract":"<jats:title>Abstract</jats:title>\n                <jats:p>The microbiome represents a complex community of trillions of microorganisms residing in various body parts, and plays critical roles in maintaining host health and well-being. Understanding the interactions between microbiota and host offers valuable insights into potential strategies to promote health, including microbiome-targeted interventions. We have created MicrobiomeKG, a Knowledge Graph for microbiome research, bridging various taxa and microbial pathways with host health. This novel knowledge graph derives algorithmically-generated knowledge assertions from the supplemental tables supporting published microbiome papers, and is deployed for integrative analysis and hypothesis generation via the Biomedical Data Translator ecosystem.</jats:p>","is_dataset_classified":null,"base_score":2.0794415416798357,"endowment":2.0794415416798357,"datacite_reuse_total":0,"file_count":0,"downloads":0,"views":0,"has_version_chain":false,"is_dataset":false,"is_oa":false,"pmid":"39464038","pmcid":null,"openalex_id":"https://openalex.org/W4403384274","authors":[],"funders":[{"funder_name":"National Science Foundation","grant_id":"2150265","title":"REU Site: Research Opportunities in Systems Biology"},{"funder_name":"National Institutes of Health","grant_id":"3OT2TR003443-01S3","title":"DOCKET: accelerating knowledge extraction from biomedical data sets"},{"funder_name":"National Institutes of Health","grant_id":"1OT2TR005706-01","title":"ARAX-MGKG2: Advanced Reasoning Agent with Multiomics, Molecular, Genetics, and RTX-KG2 Knowledge Provider Integration for Translational Research"},{"funder_name":"National Institutes of Health","grant_id":"3OT2TR003428-01S4","title":"Biomedical Data Translator Development of Autonomous Relay Agent: ARAX"},{"funder_name":"NCATS NIH HHS","grant_id":"OT2 TR003428","title":null},{"funder_name":"NCATS NIH HHS","grant_id":"OT2 TR003443","title":null},{"funder_name":"NCATS NIH HHS","grant_id":"OT3 TR002026","title":null}],"total_grants":7,"fwci":null,"citation_percentile":null,"influential_citations":0,"citation_trend":[{"year":2025,"count":5},{"year":2026,"count":2}],"oa_status":"green","license":"cc-by-nd","oa_locations":[{"url":"https://www.biorxiv.org/content/biorxiv/early/2024/10/14/2024.10.10.617697.full.pdf","host_type":"repository"},{"url":"https://www.biorxiv.org/content/biorxiv/early/2024/10/14/2024.10.10.617697.full.pdf","host_type":"repository"},{"url":"https://syndication.highwire.org/content/doi/10.1101/2024.10.10.617697","host_type":"publisher"},{"url":"https://doi.org/10.1101/2024.10.10.617697","host_type":"repository"},{"url":"https://pubmed.ncbi.nlm.nih.gov/39464038","host_type":"repository"},{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11507793","host_type":"repository"},{"url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11507793/pdf/nihpp-2024.10.10.617697v2.pdf","host_type":"repository"},{"url":"https://doi.org/10.3389/fsysb.2025.1544432","host_type":""},{"url":"https://pubmed.ncbi.nlm.nih.gov/40951793","host_type":""},{"url":"http://dx.doi.org/10.1101/2024.10.10.617697","host_type":""},{"url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12425944/","host_type":""},{"url":"https://pubmed.ncbi.nlm.nih.gov/40951793/","host_type":""}],"fields_of_study":["Biomedical Text Mining and Ontologies","Bioinformatics and Genomic Networks","Gut microbiota and health","0206 medical engineering","02 engineering and technology"],"mesh_terms":[],"keywords":["Microbiome","Bridging (networking)","Host (biology)","Data science","Human microbiome","Human health","Computer science","Computational biology","Biology","Knowledge management","Ecology","Bioinformatics","Medicine","Systems Biology","Article"],"sdg_mappings":[{"sdg_number":0,"sdg_label":"Life in Land"}],"linked_datasets":[],"clinical_trials":[],"software_tools":[],"database_accessions":[],"source":"live","citation_network_status":"fetched"},"created_at":"2026-08-04T14:25:36.096280Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}