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.