Triple
T22693206
| Position | Surface form | Disambiguated ID | Type / Status |
|---|---|---|---|
| Subject | TDP-43 proteinopathy |
E561103
|
entity |
| Predicate | hasAssociatedProtein |
P112356
|
FINISHED |
| Object | TAR DNA-binding protein 43 |
—
|
NE NERFINISHED |
How this triple was built (3 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: TAR DNA-binding protein 43 | Statement: [TDP-43 proteinopathy, hasAssociatedProtein, TAR DNA-binding protein 43]
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: TAR DNA-binding protein 43 Context triple: [TDP-43 proteinopathy, hasAssociatedProtein, TAR DNA-binding protein 43]
-
A.
TARDBP
chosen
TARDBP is a gene encoding the TDP-43 protein, a DNA/RNA-binding protein whose abnormal aggregation is a key pathological feature in amyotrophic lateral sclerosis and related neurodegenerative diseases.
-
B.
alpha-synuclein
Alpha-synuclein is a neuronal protein whose abnormal aggregation is a hallmark of Parkinson’s disease and related synucleinopathies.
-
C.
Cln3
Cln3 is a G1 cyclin in budding yeast that helps trigger the Start transition of the cell cycle by activating the Cdc28 cyclin-dependent kinase.
-
D.
TDP-43 proteinopathy
TDP-43 proteinopathy is a neurodegenerative condition characterized by abnormal aggregation and mislocalization of the TDP-43 protein, commonly implicated in disorders such as amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD).
-
E.
SOD1
SOD1 is a gene encoding the antioxidant enzyme superoxide dismutase 1, whose mutations are a major known cause of familial amyotrophic lateral sclerosis (ALS).
- F. None of above.
- G. Unsure - the case is ambiguous/there is not enough information to decide.
PD
Predicate disambiguation
gpt-5-mini-2025-08-07
Target predicate: hasAssociatedProtein Context triple: [TDP-43 proteinopathy, hasAssociatedProtein, TAR DNA-binding protein 43]
-
A.
hasProteinBinding
Indicates that one entity is capable of physically binding to or interacting specifically with a protein.
-
B.
hasProteinFeature
Indicates that a protein possesses a specific structural or functional feature, such as a domain, motif, or modification site.
-
C.
hasProtein
chosen
Indicates that one entity contains, includes, or is associated with a specific protein.
-
D.
uniprotId
Indicates that an entity is associated with a specific UniProt database identifier for a protein.
-
E.
proteinProduct
Indicates that one entity is the protein that is produced or encoded by another entity (such as a gene or transcript).
- F. None of above.
Provenance (3 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_69e2454d71b48190a1f80af9f82b6fcf |
completed | April 17, 2026, 2:35 p.m. |
| NER | Named-entity recognition | batch_69f1789c6ae481908975b7d27e7624ac |
completed | April 29, 2026, 3:18 a.m. |
| PD | Predicate disambiguation | batch_69ee62b2259c819091ed1387a748b9f3 |
completed | April 26, 2026, 7:08 p.m. |
Created at: April 17, 2026, 3:13 p.m.