{"doi":"10.1016/j.cdnut.2025.107567","title":"Network-Based Multiomic Nutrient-Associated Predictive Models for Inflammatory Bowel Disease","abstract":"Background Inflammatory bowel disease (IBD) is a multifactorial disease involving a complex interplay between host physiology, the gut microbiome, and environmental factors such as diet and nutrition. Multi-omic analyses may help to identify potential nutrient-associated omic predictors of IBD, allowing for the design of targeted dietary approaches for disease prevention and management. Objective Our objective was to apply the bioinformatics tool, Consolidated Analysis of Network Topology and Regression Elements (CANTARE), to an integrated multi-omics dataset to generate nutrient-associated predictive models for IBD. Methods We previously used a published data set of microbiome relative abundance (mb), untargeted metabolomics (met), and microbial-derived enzymes (e) in stool samples from 153 adults (IBD=111, healthy control=42) to build a network of cross-omic relationships that differed by IBD status. We now revisit this network to identify diet-associated predictive models of IBD using linear regression via the CANTARE workflow. Results The network included twenty literature-supported nutrient-associated predictors across three subnetworks. We created one predictive model from each subnetwork. These models (M1, M2, and M3) contained three, four, and 11 predictors, respectively. Model performance was high, with AUC of 0.87, 0.90, and 0.95 and pseudo-R 2 of 0.42, 0.55, and 0.71 (all permutation p-values < 0.001) for M1, M2, and M3, respectively. Some metabolites, such as histamine, were associated with greater odds of IBD, while others, such has ascorbate (vitamin C), pyridoxamine (vitamin B6), and choline, were associated with lower odds of IBD. Conclusion CANTARE provides an unbiased and comprehensive strategy that can integrate multiple omes to identify potential nutrient-associated predictors of IBD. Our models support the generation of hypotheses for follow-up targeted investigation in future dietary interventions for management of IBD.","journal":"Current Developments in Nutrition","year":2025,"id":527072,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":3,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9553,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2025-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1403206,"name":"Evaniya Shakya","orcid":"0000-0002-6768-617X","position":1,"is_corresponding":false},{"id":515952,"name":"Janet Siebert","orcid":"0000-0001-8505-9359","position":2,"is_corresponding":false},{"id":924509,"name":"Emily B. Hill","orcid":"0000-0002-0308-5666","position":3,"is_corresponding":false},{"id":299389,"name":"Nancy F. Krebs","orcid":"0000-0001-5652-7547","position":4,"is_corresponding":false},{"id":449601,"name":"Edwin F. de Zoeten","orcid":"0000-0002-0946-9759","position":5,"is_corresponding":false},{"id":294108,"name":"Sarah J. Borengasser","orcid":"0000-0002-9984-0178","position":6,"is_corresponding":false},{"id":700127,"name":"Martine Saint-Cyr","orcid":null,"position":0,"is_corresponding":true}],"reference_count":50,"raw_metadata":null,"created_at":"2026-07-19T02:50:34.851930Z","pmid":"41368212","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":[]}