Triple

T14427012
Position Surface form Disambiguated ID Type / Status
Subject Yersinia outer proteins E357721 entity
Predicate encodedBy P14248 FINISHED
Object Yersinia virulence plasmid pYV
Yersinia virulence plasmid pYV is a key pathogenicity plasmid in Yersinia species that carries genes essential for type III secretion and delivery of Yersinia outer proteins (Yops) into host cells, enabling immune evasion and virulence.
E1099876 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: Yersinia virulence plasmid pYV | Statement: [Yersinia outer proteins, encodedBy, Yersinia virulence plasmid pYV]
NED1 Entity disambiguation (via context triple) gpt-5-mini-2025-08-07
Target entity: Yersinia virulence plasmid pYV
Context triple: [Yersinia outer proteins, encodedBy, Yersinia virulence plasmid pYV]
  • A. Yersinia outer proteins
    Yersinia outer proteins are a group of effector proteins secreted by Yersinia bacteria via a type III secretion system that disrupt host immune responses and promote infection.
  • B. Yersinia
    Yersinia is a genus of Gram-negative bacteria that includes several pathogenic species, most notably Yersinia pestis, the causative agent of plague.
  • C. Molecular Biology of Bacterial Viruses
    Molecular Biology of Bacterial Viruses is a classic scientific monograph that helped establish the foundations of molecular genetics through the study of bacteriophages.
  • D. Francisella
    Francisella is a genus of small, Gram-negative, facultatively intracellular bacteria best known for including Francisella tularensis, the causative agent of tularemia.
  • E. Journal of Bacteriology
    The Journal of Bacteriology is a leading peer-reviewed scientific journal that publishes research on all aspects of bacteriology and bacterial physiology, genetics, and molecular biology.
  • 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: Yersinia virulence plasmid pYV
Triple: [Yersinia outer proteins, encodedBy, Yersinia virulence plasmid pYV]
Generated description
Yersinia virulence plasmid pYV is a key pathogenicity plasmid in Yersinia species that carries genes essential for type III secretion and delivery of Yersinia outer proteins (Yops) into host cells, enabling immune evasion and virulence.
NED2 Entity disambiguation (via description) gpt-5-mini-2025-08-07
Target entity: Yersinia virulence plasmid pYV
Target entity description: Yersinia virulence plasmid pYV is a key pathogenicity plasmid in Yersinia species that carries genes essential for type III secretion and delivery of Yersinia outer proteins (Yops) into host cells, enabling immune evasion and virulence.
  • A. Yersinia outer proteins
    Yersinia outer proteins are a group of effector proteins secreted by Yersinia bacteria via a type III secretion system that disrupt host immune responses and promote infection.
  • B. Yersinia
    Yersinia is a genus of Gram-negative bacteria that includes several pathogenic species, most notably Yersinia pestis, the causative agent of plague.
  • C. Molecular Biology of Bacterial Viruses
    Molecular Biology of Bacterial Viruses is a classic scientific monograph that helped establish the foundations of molecular genetics through the study of bacteriophages.
  • D. Francisella
    Francisella is a genus of small, Gram-negative, facultatively intracellular bacteria best known for including Francisella tularensis, the causative agent of tularemia.
  • E. Journal of Bacteriology
    The Journal of Bacteriology is a leading peer-reviewed scientific journal that publishes research on all aspects of bacteriology and bacterial physiology, genetics, and molecular biology.
  • 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_69d8279402a88190821ffa39ae15bccf completed April 9, 2026, 10:26 p.m.
NER Named-entity recognition batch_69de911398f08190be85bc0a8bef6b1b completed April 14, 2026, 7:10 p.m.
NED1 Entity disambiguation (via context triple) batch_69fd5bcfa1d88190b59cefd3e305f55f completed May 8, 2026, 3:43 a.m.
NEDg Description generation batch_69fd5d6af9ac8190a37f11b0f8a1db0f completed May 8, 2026, 3:50 a.m.
NED2 Entity disambiguation (via description) batch_69fd5df48f7481909764bc4e23c0b04a completed May 8, 2026, 3:52 a.m.
Created at: April 10, 2026, 1:18 a.m.