Triple
T3439042
| Position | Surface form | Disambiguated ID | Type / Status |
|---|---|---|---|
| Subject | Yersinia pestis |
E72523
|
entity |
| Predicate | virulenceFactor |
P40198
|
FINISHED |
| Object |
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.
|
E357721
|
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 outer proteins | Statement: [Yersinia pestis, virulenceFactor, Yersinia outer proteins]
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: Yersinia outer proteins Context triple: [Yersinia pestis, virulenceFactor, Yersinia outer proteins]
-
A.
Gammaproteobacteria
Gammaproteobacteria is a major and diverse class of Gram-negative bacteria that includes many medically and ecologically important genera, such as Vibrio, Escherichia, and Pseudomonas.
-
B.
Nourse
Nourse is a surname and variant spelling of "Nurse," historically associated with English-speaking families and occasionally used as a place or business name.
-
C.
Yersinia pestis
Yersinia pestis is a highly virulent bacterium responsible for plague, including the historic pandemics of bubonic, septicemic, and pneumonic forms.
-
D.
Vibrio cholerae
Vibrio cholerae is a Gram-negative, comma-shaped bacterium that causes the acute diarrheal disease cholera in humans.
-
E.
Pyrobaculum aerophilum
Pyrobaculum aerophilum is a hyperthermophilic archaeon that thrives in extremely high-temperature, often sulfur-rich environments and serves as a model organism for studying the biology of Crenarchaeota.
- 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 outer proteins Triple: [Yersinia pestis, virulenceFactor, Yersinia outer proteins]
Generated description
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.
NED2
Entity disambiguation (via description)
gpt-5-mini-2025-08-07
Target entity: Yersinia outer proteins Target entity description: 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.
-
A.
Gammaproteobacteria
Gammaproteobacteria is a major and diverse class of Gram-negative bacteria that includes many medically and ecologically important genera, such as Vibrio, Escherichia, and Pseudomonas.
-
B.
Nourse
Nourse is a surname and variant spelling of "Nurse," historically associated with English-speaking families and occasionally used as a place or business name.
-
C.
Yersinia pestis
Yersinia pestis is a highly virulent bacterium responsible for plague, including the historic pandemics of bubonic, septicemic, and pneumonic forms.
-
D.
Vibrio cholerae
Vibrio cholerae is a Gram-negative, comma-shaped bacterium that causes the acute diarrheal disease cholera in humans.
-
E.
Pyrobaculum aerophilum
Pyrobaculum aerophilum is a hyperthermophilic archaeon that thrives in extremely high-temperature, often sulfur-rich environments and serves as a model organism for studying the biology of Crenarchaeota.
- 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_69ad85af50288190a854b76653deee6f |
completed | March 8, 2026, 2:20 p.m. |
| NER | Named-entity recognition | batch_69adb9f6de1481909b789f4b0e1113d3 |
completed | March 8, 2026, 6:03 p.m. |
| NED1 | Entity disambiguation (via context triple) | batch_69b35483d0488190b6a4bd2ed65f78d3 |
completed | March 13, 2026, 12:04 a.m. |
| NEDg | Description generation | batch_69b358b368648190840d1dee4a659a32 |
completed | March 13, 2026, 12:22 a.m. |
| NED2 | Entity disambiguation (via description) | batch_69b3593c810c819080f5370601750133 |
completed | March 13, 2026, 12:24 a.m. |
Created at: March 8, 2026, 3:16 p.m.