hugging-science/goa_reasoning

Dataset Description

This dataset integrates Gene Ontology (GO) annotations (filtered to experimental evidence, IDA) with bibliographic data from Europe PMC. Each record links a biological entity (gene/protein) to a GO term and the supporting scientific publication (Title and Abstract).

Columns

• —DB, DB_Object_ID, DB_Object_Symbol — Source database and gene/protein identifiers
• —Qualifier — Relationship qualifier (e.g., NOT, contributes_to)
• —GO_ID, GO_Name — GO term and its descriptive name
• —DB_Reference — Supporting reference (PubMed or other)
• —Evidence_Code — Experimental evidence type (e.g., IDA)
• —Aspect — Ontology branch (P = process, F = function, C = component)
• —DB_Object_Name, DB_Object_Synonym, DB_Object_Type — Entity metadata
• —Taxon — Organism taxonomy ID
• —Date, Assigned_By, Annotation_Extension — Annotation metadata
• —PMID — PubMed ID for the supporting publication
• —Title, Abstract — Publication title and abstract text (fetched from Europe PMC)

Summary

This dataset forms a structured link between curated GO annotations and natural language descriptions of the underlying biology — suitable for:

• —Biological reasoning
• —Text mining
• —Literature-grounded machine learning (ML) datasets