{"doi":"10.4056/sigs.147362","title":"Meeting Report from the Second “Minimum Information for Biological and Biomedical Investigations” (MIBBI) workshop","abstract":"This report summarizes the proceedings of the second workshop of the 'Minimum Information for Biological and Biomedical Investigations' (MIBBI) consortium held on Dec 1-2, 2010 in Rüdesheim, Germany through the sponsorship of the Beilstein-Institute. MIBBI is an umbrella organization uniting communities developing Minimum Information (MI) checklists to standardize the description of data sets, the workflows by which they were generated and the scientific context for the work. This workshop brought together representatives of more than twenty communities to present the status of their MI checklists and plans for future development. Shared challenges and solutions were identified and the role of MIBBI in MI checklist development was discussed. The meeting featured some thirty presentations, wide-ranging discussions and breakout groups. The top outcomes of the two-day workshop as defined by the participants were: 1) the chance to share best practices and to identify areas of synergy; 2) defining a series of tasks for updating the MIBBI Portal; 3) reemphasizing the need to maintain independent MI checklists for various communities while leveraging common terms and workflow elements contained in multiple checklists; and 4) revision of the concept of the MIBBI Foundry to focus on the creation of a core set of MIBBI modules intended for reuse by individual MI checklist projects while maintaining the integrity of each MI project. Further information about MIBBI and its range of activities can be found at http://mibbi.org/.","journal":"Standards in Genomic Sciences","year":2010,"id":591,"datarank":1.9405220864546053,"base_score":3.4965075614664802,"endowment":3.4965075614664802,"self_citation_contribution":0.5244761342199721,"citation_network_contribution":1.4160459522346331,"self_endowment_contribution":0.5244761342199721,"citer_contribution":1.4160459522346331,"corpus_percentile":64.19853539462979,"corpus_rank":441,"citation_count":32,"citer_count":24,"citers_with_citation_signal":22,"citers_with_endowment":22,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.8244,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2010-01-01","fair_score":36.25,"fair_percentile":17.963940193491645,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":5911,"name":"Dawn Field","orcid":null,"position":1,"is_corresponding":false},{"id":5912,"name":"Chris Taylor","orcid":"0000-0002-9666-798X","position":3,"is_corresponding":false},{"id":5913,"name":"Jan Aerts","orcid":"0000-0002-6416-2717","position":4,"is_corresponding":false},{"id":5914,"name":"Nigel Binns","orcid":null,"position":5,"is_corresponding":false},{"id":5915,"name":"Andrew Blake","orcid":"0000-0002-8154-6253","position":6,"is_corresponding":false},{"id":5916,"name":"Cedrik M. Britten","orcid":"0000-0003-3424-8760","position":7,"is_corresponding":false},{"id":5917,"name":"Ario de Marco","orcid":"0000-0001-7729-819X","position":8,"is_corresponding":false},{"id":5918,"name":"Jennifer Fostel","orcid":"0000-0001-5858-4393","position":9,"is_corresponding":false},{"id":5919,"name":"Pascale Gaudet","orcid":"0000-0003-1813-6857","position":10,"is_corresponding":false},{"id":286,"name":"Alejandra Noemí González Beltrán","orcid":"0000-0003-3499-8262","position":11,"is_corresponding":false},{"id":5920,"name":"Nigel Hardy","orcid":"0000-0002-9607-2601","position":12,"is_corresponding":false},{"id":5921,"name":"Jan Hellemans","orcid":"0000-0003-0825-0031","position":13,"is_corresponding":false},{"id":5922,"name":"Henning Hermjakob","orcid":"0000-0001-8479-0262","position":14,"is_corresponding":false},{"id":2497,"name":"Nick Juty","orcid":"0000-0002-2036-8350","position":15,"is_corresponding":false},{"id":5923,"name":"Jim Leebens-Mack","orcid":null,"position":16,"is_corresponding":false},{"id":284,"name":"Eamonn Maguire","orcid":"0000-0002-7277-7834","position":17,"is_corresponding":false},{"id":5924,"name":"Steffen Neumann","orcid":"0000-0002-7899-7192","position":18,"is_corresponding":false},{"id":5925,"name":"Sandra Orchard","orcid":"0000-0002-8878-3972","position":19,"is_corresponding":false},{"id":2833,"name":"Helen Parkinson","orcid":"0000-0003-3035-4195","position":20,"is_corresponding":false},{"id":5926,"name":"William Piel","orcid":null,"position":21,"is_corresponding":false},{"id":5927,"name":"Shoba Ranganathan","orcid":"0000-0002-8290-813X","position":22,"is_corresponding":false},{"id":5765,"name":"Philippe Rocca-Serra","orcid":null,"position":23,"is_corresponding":false},{"id":5928,"name":"Annapaola Santarsiero","orcid":null,"position":24,"is_corresponding":false},{"id":5930,"name":"Peter Sterk","orcid":"0000-0003-1668-7778","position":26,"is_corresponding":false},{"id":5931,"name":"Andreas Untergasser","orcid":null,"position":27,"is_corresponding":false},{"id":5932,"name":"Patricia L. Whetzel","orcid":"0000-0002-3458-4839","position":28,"is_corresponding":false},{"id":290,"name":"Susanna‐Assunta Sansone","orcid":"0000-0001-5306-5690","position":29,"is_corresponding":false},{"id":5933,"name":"Jim Leebens‐Mack","orcid":"0000-0003-4811-2231","position":30,"is_corresponding":false},{"id":5934,"name":"William H. Piel","orcid":"0000-0002-0429-9797","position":31,"is_corresponding":false},{"id":289,"name":"Rocca-Serra, Philippe","orcid":"0000-0001-9853-5668","position":32,"is_corresponding":false},{"id":2165,"name":"David M. Shotton","orcid":"0000-0001-5506-523X","position":33,"is_corresponding":false},{"id":5910,"name":"Carsten Kettner","orcid":"0000-0002-8697-6842","position":0,"is_corresponding":true}],"reference_count":36,"raw_metadata":{"citation_network_status":"fetched"},"created_at":"2026-03-01T18:20:47.508186Z","pmid":"21304730","pmcid":"PMC3035314","fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":"gold","license":"cc-by","views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":52.5,"fair_a":42.5,"fair_i":25.0,"fair_r":25.0,"fair_zscore":-0.8106,"fair_rationale":{"fair_score":36.25,"has_llm":true,"dimensions":{"F":{"name":"Findable","score":52.5,"criteria":[{"key":"f_has_doi","label":"Has a persistent DOI","kind":"deterministic","weight":1.0,"fraction":1.0,"signal":"DOI present","rationale":null},{"key":"f_repository_presence","label":"Indexed in repositories / literature DBs","kind":"deterministic","weight":1.0,"fraction":1.0,"signal":"datacite=0, pmcid=True, pmid=True","rationale":null},{"key":"f_persistent_ids","label":"Resolvable scholarly identifiers (OpenAlex)","kind":"deterministic","weight":0.5,"fraction":0.0,"signal":"no OpenAlex id","rationale":null},{"key":"f_metadata_richness","label":"Rich, machine-readable metadata","kind":"llm","weight":1.0,"fraction":0.25,"signal":null,"rationale":"The paper does not provide machine-readable metadata; it only includes human-readable citation and licensing information."}]},"A":{"name":"Accessible","score":42.5,"criteria":[{"key":"a_open_access","label":"Open Access / files deposited","kind":"deterministic","weight":1.5,"fraction":1.0,"signal":"Open Access","rationale":null},{"key":"a_retrievable","label":"Free full text retrievable","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"0 OA location(s)","rationale":null},{"key":"a_access_protocol","label":"Clear data/code access protocol","kind":"llm","weight":1.0,"fraction":0.25,"signal":null,"rationale":"No clear protocol for accessing data or code is provided; only a general reference to the MIBBI website."}]},"I":{"name":"Interoperable","score":25.0,"criteria":[{"key":"i_linked_data","label":"Linked datasets / DataCite relations","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"linked_datasets=0, datacite=0","rationale":null},{"key":"i_standard_ids","label":"References data via standard accessions","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"accessions=0, trials=0","rationale":null},{"key":"i_standards","label":"Standard formats, vocabularies & identifiers","kind":"llm","weight":1.0,"fraction":0.5,"signal":null,"rationale":"The paper discusses MI checklists and ontology tagging but does not demonstrate use of standard formats or identifiers for its own content."}]},"R":{"name":"Reusable","score":25.0,"criteria":[{"key":"r_license","label":"Clear, open reuse license","kind":"deterministic","weight":1.5,"fraction":0.0,"signal":"no license","rationale":null},{"key":"r_downloads","label":"Demonstrated reuse (downloads)","kind":"deterministic","weight":0.5,"fraction":0.0,"signal":"downloads=0","rationale":null},{"key":"r_version","label":"Versioned / maintained","kind":"deterministic","weight":0.5,"fraction":0.0,"signal":"no version chain","rationale":null},{"key":"r_dataset","label":"Classified as a data resource","kind":"deterministic","weight":0.5,"fraction":1.0,"signal":"is_dataset","rationale":null},{"key":"r_reusability","label":"Data-availability statement, license & reproducibility","kind":"llm","weight":2.0,"fraction":0.333,"signal":null,"rationale":"The paper has a Creative Commons license but lacks a clear data-availability statement and does not describe how to reproduce any results."}]}},"suggestions":["Include structured machine-readable metadata (e.g., JSON-LD) in the paper to enhance findability.","Provide a direct link or DOI to any associated datasets and code with clear access conditions.","Use standard persistent identifiers (e.g., DOIs, ORCIDs) for key entities mentioned in the paper.","Add a formal data-availability statement and explicit license for any supplementary materials.","Include a reproducibility section describing how to access and use the checklists and tools discussed."],"model":"deepseek/deepseek-v4-flash","agent_version":"fair_agent_v2","fulltext_source":"epmc_xml"},"fair_model":"deepseek/deepseek-v4-flash","fair_agent_version":"fair_agent_v2","fair_fulltext_source":"epmc_xml","fair_has_llm":true,"fair_computed_at":"2026-06-18T00:44:30.245840Z","clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}