Why this work is in the frame
A frame that forgets how it found something cannot be audited. These are the routes that admitted this work.
affAt least one author lists a Canadian institution in the pinned OpenAlex snapshot.
fundA Canadian funder is recorded on the work.
VenueNucleic Acids Research · 2024
Typearticle
Languageen
FieldMedicine
TopicMicrobial Natural Products and Biosynthesis
Canadian institutionsUniversity of OttawaMcMaster UniversityUniversity of ManitobaSimon Fraser UniversityUniversity of Northern British Columbia
FundersNational Science Foundation Graduate Research Fellowship ProgramSINTEF IndustriHORIZON EUROPE European Innovation CouncilNational Center for Complementary and Integrative HealthNational Key Research and Development Program of ChinaEuropean Regional Development FundStaatssekretariat für Bildung, Forschung und InnovationFundação para a Ciência e a TecnologiaJapan Society for the Promotion of ScienceNational Health and Medical Research CouncilBiotechnology and Biological Sciences Research CouncilMedical Research CouncilNatural Sciences and Engineering Research Council of CanadaHORIZON EUROPE Framework ProgrammeHorizon 2020 Framework ProgrammeNational Institute of Environmental Health SciencesOffice of ScienceH2020 Marie Skłodowska-Curie ActionsUniversity of Illinois at Urbana-ChampaignNational Agri-Food Biotechnology InstituteDirectorate for Biological SciencesNational Institutes of HealthKementerian Pendidikan, Kebudayaan, Riset, dan TeknologiAgencia Nacional de Investigación y DesarrolloFulbright AssociationJunta de AndalucíaNovo Nordisk FondenNational Estuarine Research Reserve SystemUniversität des SaarlandesShanghai Jiao Tong UniversityMinistry of Higher Education and Scientific ResearchMinistry of Education, IndiaNational Institute of General Medical SciencesLeids Universitair Medisch CentrumNational Natural Science Foundation of ChinaNational Research Foundation of KoreaDeutsche ForschungsgemeinschaftNederlandse Organisatie voor Wetenschappelijk OnderzoekHans-Fischer-GesellschaftConsejo Nacional de Ciencia y TecnologíaFonds Wetenschappelijk OnderzoekFonds National de la Recherche LuxembourgH2020 European Research CouncilAustralian GovernmentUniversity of SydneyDanmarks GrundforskningsfondU.S. Department of AgricultureSchweizerischer Nationalfonds zur Förderung der Wissenschaftlichen ForschungUniversiteit LeidenUniversity Grants Commission of BangladeshNational Science FoundationUK Research and InnovationDivision of Chemical, Bioengineering, Environmental, and Transport SystemsDepartment of Biotechnology, Ministry of Science and Technology, IndiaDepartment for Environment, Food and Rural Affairs, UK GovernmentMinistry of Education and Science of UkraineWerner Siemens-StiftungLeibniz-GemeinschaftAgence Nationale de la RechercheEmory UniversityMinisterio de Ciencia, Innovación y UniversidadesGovernment of the United KingdomUniversity Grants CommissionBadan Riset dan Inovasi NasionalNational Research FoundationVlaamse regeringAlexander von Humboldt-StiftungMinistry of Science and ICT, South KoreaNovo NordiskDeutsches Zentrum für InfektionsforschungCarlsbergfondetInnovationsfondenEuropean CommissionFundação de Amparo à Pesquisa do Estado de São PauloLembaga Pengelola Dana PendidikanAustrian Science FundU.S. Department of Energy
KeywordsBiologyGene clusterData curationCluster (spacecraft)Computational biologyGeneGeneticsData science
Abstract
fetched live from OpenAlexSpecialized or secondary metabolites are small molecules of biological origin, often showing potent biological activities with applications in agriculture, engineering and medicine. Usually, the biosynthesis of these natural products is governed by sets of co-regulated and physically clustered genes known as biosynthetic gene clusters (BGCs). To share information about BGCs in a standardized and machine-readable way, the Minimum Information about a Biosynthetic Gene cluster (MIBiG) data standard and repository was initiated in 2015. Since its conception, MIBiG has been regularly updated to expand data coverage and remain up to date with innovations in natural product research. Here, we describe MIBiG version 4.0, an extensive update to the data repository and the underlying data standard. In a massive community annotation effort, 267 contributors performed 8304 edits, creating 557 new entries and modifying 590 existing entries, resulting in a new total of 3059 curated entries in MIBiG. Particular attention was paid to ensuring high data quality, with automated data validation using a newly developed custom submission portal prototype, paired with a novel peer-reviewing model. MIBiG 4.0 also takes steps towards a rolling release model and a broader involvement of the scientific community. MIBiG 4.0 is accessible online at https://mibig.secondarymetabolites.org/.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
metaresearch head score (Codex)0.001
metaresearch head score (Gemma)0.001
Version: codex-gemma-dda1882f352aValidation status: machine_predicted_unvalidated
Candidate categoriesInsufficient payload (model declined to judge)
Consensus categoriesnone
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Bench or experimental · Consensus signal: Bench or experimental
GenreCandidate signal: Empirical · Consensus signal: Empirical
Teacher disagreement score0.378
Threshold uncertainty score1.000
Codex and Gemma teacher scores by category
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
Teacher spread0.334 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it
