Triple

T23466904
Position Surface form Disambiguated ID Type / Status
Subject GEO DataSets E569121 entity
Predicate linkedTo P37 FINISHED
Object NCBI SRA
NCBI SRA (Sequence Read Archive) is a major public repository that stores and provides access to raw high-throughput sequencing data from a wide range of genomic and transcriptomic studies.
E1589491 NE FINISHED

How this triple was built (4 steps)

Every LLM step that produced this triple, in pipeline order — named-entity classification, the disambiguation choices (the exact options shown, with the pick highlighted), and the generated description. The batch + timestamp of each is in the Provenance table below.

NER Named-entity recognition gpt-5-mini
Instruction
Given a phrase, classify it is english named entity (e.g., persons, organizations, works of art) in Latin script, or not (e.g., literals, dates, URLs, verbose phrases). For disambiguation, the statement where the phrase occurs as object is also given. Please return a JSON object with `phrase` (string, the phrase being analyzed) and `is_ne` (boolean, indicating whether the phrase is a Named Entity).
Input
Phrase: NCBI SRA | Statement: [GEO DataSets, linkedTo, NCBI SRA]
NED1 Entity disambiguation (via context triple) gpt-5-mini-2025-08-07
Target entity: NCBI SRA
Context triple: [GEO DataSets, linkedTo, NCBI SRA]
  • A. BioProject database
    The BioProject database is an NCBI resource that organizes and links together data from large-scale biological research projects, such as genome sequencing and functional genomics studies.
  • B. GEO DataSets
    GEO DataSets is a public NCBI repository that organizes and provides access to curated gene expression and other functional genomics experiment data.
  • C. NCBI databases
    NCBI databases are a collection of publicly accessible biological data resources, including nucleotide and protein sequences, genomes, and literature, maintained by the U.S. National Center for Biotechnology Information.
  • D. GenBank
    GenBank is a comprehensive public database of nucleotide sequences and their associated annotation, widely used as a primary resource for genetic and genomic research.
  • E. DNAnexus
    DNAnexus is a cloud-based genomics and bioinformatics platform that enables large-scale DNA data analysis, management, and collaboration for research and clinical applications.
  • F. None of above. chosen
  • G. Unsure - the case is ambiguous/there is not enough information to decide.
NEDg Description generation gpt-5.1
Instruction
Generate a one-sentence description of the target entity. 
You are given a context triple in the form (subject, predicate, object), where the object is the target entity. 
# Instructions
Use the triple to infer relevant information about the entity. Describe the entity based on what is most defining, well-known. 
Avoid repeating the information from the triple, unless really essential.
# Response Format
Return only the sentence: "Description: [one-sentence description of the target entity]"
Input
Entity: NCBI SRA
Triple: [GEO DataSets, linkedTo, NCBI SRA]
Generated description
NCBI SRA (Sequence Read Archive) is a major public repository that stores and provides access to raw high-throughput sequencing data from a wide range of genomic and transcriptomic studies.
NED2 Entity disambiguation (via description) gpt-5-mini-2025-08-07
Target entity: NCBI SRA
Target entity description: NCBI SRA (Sequence Read Archive) is a major public repository that stores and provides access to raw high-throughput sequencing data from a wide range of genomic and transcriptomic studies.
  • A. BioProject database
    The BioProject database is an NCBI resource that organizes and links together data from large-scale biological research projects, such as genome sequencing and functional genomics studies.
  • B. GEO DataSets
    GEO DataSets is a public NCBI repository that organizes and provides access to curated gene expression and other functional genomics experiment data.
  • C. NCBI databases
    NCBI databases are a collection of publicly accessible biological data resources, including nucleotide and protein sequences, genomes, and literature, maintained by the U.S. National Center for Biotechnology Information.
  • D. GenBank
    GenBank is a comprehensive public database of nucleotide sequences and their associated annotation, widely used as a primary resource for genetic and genomic research.
  • E. DNAnexus
    DNAnexus is a cloud-based genomics and bioinformatics platform that enables large-scale DNA data analysis, management, and collaboration for research and clinical applications.
  • F. None of above. chosen

Provenance (5 batches)

The batch behind each pipeline step, in order, with when it ran. Timestamps are batch-level — stages were processed in waves, so the object chain (NER → NED1 → NEDg → NED2) reads in order, but predicate / elicitation batches can sit in a different wave.

Step Stage Batch ID Status When
creating Elicitation batch_69e2458ebd808190b3298163132cfb0b completed April 17, 2026, 2:37 p.m.
NER Named-entity recognition batch_69f1a6fc35c48190a67614fb4170f15b completed April 29, 2026, 6:36 a.m.
NED1 Entity disambiguation (via context triple) batch_6a0c8254f3fc819098b6b59eb19e27f0 completed May 19, 2026, 3:31 p.m.
NEDg Description generation batch_6a0ca6efb0d88190bf15b18cc3f12482 completed May 19, 2026, 6:07 p.m.
NED2 Entity disambiguation (via description) batch_6a0ca80db6288190ae99313c1f2485db completed May 19, 2026, 6:12 p.m.
Created at: April 17, 2026, 5:54 p.m.