{"doi":"10.1016/j.celrep.2024.114416","title":"The HuMet Repository: Watching human metabolism at work","abstract":"Metabolism oscillates between catabolic and anabolic states depending on food intake, exercise, or stresses that change a multitude of metabolic pathways simultaneously. We present the HuMet Repository for exploring dynamic metabolic responses to oral glucose/lipid loads, mixed meals, 36-h fasting, exercise, and cold stress in healthy subjects. Metabolomics data from blood, urine, and breath of 15 young, healthy men at up to 56 time points are integrated and embedded within an interactive web application, enabling researchers with and without computational expertise to search, visualize, analyze, and contextualize the dynamic metabolite profiles of 2,656 metabolites acquired on multiple platforms. With examples, we demonstrate the utility of the resource for research into the dynamics of human metabolism, highlighting differences and similarities in systemic metabolic responses across challenges and the complementarity of metabolomics platforms. The repository, providing a reference for healthy metabolite changes to six standardized physiological challenges, is freely accessible through a web portal.","journal":"Cell Reports","year":2024,"id":458036,"datarank":0.30726763117462835,"base_score":1.791759469228055,"endowment":1.791759469228055,"self_citation_contribution":0.26876392038420827,"citation_network_contribution":0.0385037107904201,"self_endowment_contribution":0.26876392038420827,"citer_contribution":0.0385037107904201,"corpus_percentile":45.70279260462598,"corpus_rank":7020,"citation_count":5,"citer_count":4,"citers_with_citation_signal":3,"citers_with_endowment":3,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.9402,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2024-01-01","fair_score":58.3333,"fair_percentile":72.8829104249465,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":57500,"name":"Johannes Raffler","orcid":"0000-0003-2495-4020","position":1,"is_corresponding":false},{"id":30229,"name":"Werner Römisch‐Margl","orcid":"0000-0001-9345-4279","position":2,"is_corresponding":false},{"id":244565,"name":"Matthias Arnold","orcid":"0000-0002-4666-0923","position":3,"is_corresponding":false},{"id":51058,"name":"Robert P. Mohney","orcid":"0000-0002-9315-9541","position":4,"is_corresponding":false},{"id":901912,"name":"Manuela J. Rist","orcid":"0000-0002-7067-2756","position":5,"is_corresponding":false},{"id":11467,"name":"Cornelia Prehn","orcid":"0000-0002-1274-4715","position":6,"is_corresponding":false},{"id":901911,"name":"Thomas Skurk","orcid":"0000-0002-6875-1658","position":7,"is_corresponding":false},{"id":89433,"name":"Hans Hauner","orcid":"0000-0002-1682-5088","position":8,"is_corresponding":false},{"id":1283952,"name":"Hannelore Daniel","orcid":"0000-0003-3937-9719","position":9,"is_corresponding":false},{"id":2350,"name":"Karsten Suhre","orcid":"0000-0001-9638-3912","position":10,"is_corresponding":false},{"id":2353,"name":"Gabi Kastenmüller","orcid":"0000-0002-2368-7322","position":11,"is_corresponding":false},{"id":805770,"name":"Patrick Weinisch","orcid":"0000-0001-8430-2150","position":0,"is_corresponding":true}],"reference_count":67,"raw_metadata":null,"created_at":"2026-07-19T02:03:46.117860Z","pmid":"39033506","pmcid":"PMC11513335","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":72.2222,"fair_a":81.25,"fair_i":20.0,"fair_r":41.6667,"fair_zscore":0.9454,"fair_rationale":{"fair_score":58.33,"has_llm":true,"taxonomy_version":"fair_taxonomy_v5","dimensions":{"F":{"name":"Findable","score":72.22,"criteria":[{"key":"f_dataset_pid","label":"Persistent identifier for the data","kind":"llm","weight":2.0,"fraction":0.5,"verdict":"partial","evidence":null,"grounded":false,"rationale":"The paper provides a MetaboLights accession (MTBLS89), which is a persistent identifier scheme. 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'Free to use' is not a licence: it grants nothing a reuser's institution can rely on.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"No license is stated for the data; the article's CC BY license does not apply to the data.","gain":16.67,"priority":"essential","scored":true},{"key":"f_dataset_pid","dimension":"F","label":"Persistent identifier for the data","action":"Mint or cite a persistent identifier for the dataset — a repository DOI or an accession from a registered repository — and print it in the paper. A bare URL is not persistent: it is the single most common cause of a dead data link five years after publication. For proteomics data, deposit in PRIDE (PXD accession) or ProteomeXchange.","anchors":["yes","partial","no"],"verdict":"partial","current":0.5,"evidence":null,"why":"The paper provides a MetaboLights accession (MTBLS89), which is a persistent identifier scheme. 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In proteomics, describe the data with mzML or MIAPE.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"No community data or metadata standard is explicitly named for the dataset. [majority verdict 'no' (3/5 passes agreed)]","gain":0.0,"priority":"important","scored":false},{"key":"r_documentation_codebook","dimension":"R","label":"Documentation / codebook","action":"Ship a README and a data dictionary IN the deposit — every file, every variable, its units, its allowed values, its missing-value codes. It is the cheapest single thing that makes a dataset usable by someone who was not in the lab, and a table buried in the article does not travel with the data.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"Table S1 provides metabolite descriptions inside the article, but no documentation object is stated to accompany the data. 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[majority verdict 'partial' (4/5 passes agreed)]","gain":0.0,"priority":"useful","scored":false}],"suggestions":["Attach a standard, machine-readable open licence to the deposit — CC0 or CC BY, which is what Horizon Europe and most funders expect — and print the licence identifier in the paper. 'Free to use' is not a licence: it grants nothing a reuser's institution can rely on.","Mint or cite a persistent identifier for the dataset — a repository DOI or an accession from a registered repository — and print it in the paper. A bare URL is not persistent: it is the single most common cause of a dead data link five years after publication. For proteomics data, deposit in PRIDE (PXD accession) or ProteomeXchange.","Release the data in an open, community-standard format (CSV/TSV, JSON, HDF5, NetCDF, FASTQ, VCF, NIfTI…) instead of — or alongside — any proprietary or instrument-native format, and name the format in the paper. A dataset that needs a €2,000 licence to open is not reusable. 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A reader reproducing your work against 'the current release' is reproducing it against a different dataset."],"model":"deepseek/deepseek-v4-flash","agent_version":"fair_agent_v8","fulltext_source":"unpaywall_pdf"},"fair_model":"deepseek/deepseek-v4-flash","fair_agent_version":"fair_agent_v8","fair_fulltext_source":"unpaywall_pdf","fair_has_llm":true,"fair_computed_at":"2026-07-20T13:01:58.246223Z","clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}