Triple
T17521715
| Position | Surface form | Disambiguated ID | Type / Status |
|---|---|---|---|
| Subject | Bioconductor |
E426691
|
entity |
| Predicate | hasComponent |
P35
|
FINISHED |
| Object | SummarizedExperiment package |
—
|
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: SummarizedExperiment package | Statement: [Bioconductor, hasComponent, SummarizedExperiment package]
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: SummarizedExperiment package Context triple: [Bioconductor, hasComponent, SummarizedExperiment package]
-
A.
Bioconductor
Bioconductor is an open-source project that provides R packages and tools for the analysis and comprehension of high-throughput genomic and biological data.
-
B.
Genome Data Viewer
Genome Data Viewer is an NCBI web-based genome browser that allows users to visualize, explore, and analyze annotated genomic sequences and features.
-
C.
OncoAnalytics
OncoAnalytics is a data and analytics platform by Flatiron Health that provides real-world oncology insights to support cancer research and clinical decision-making.
-
D.
GEO DataSets
GEO DataSets is a public NCBI repository that organizes and provides access to curated gene expression and other functional genomics experiment data.
-
E.
Springer Nature Experiments
Springer Nature Experiments is an online platform by Springer Nature that provides curated, searchable experimental protocols and methods for researchers in the life and physical sciences.
- F. None of above. chosen
- G. Unsure - the case is ambiguous/there is not enough information to decide.
NED2
Entity disambiguation (via description)
gpt-5-mini-2025-08-07
Target entity: SummarizedExperiment package Target entity description: The SummarizedExperiment package is a Bioconductor R toolkit that provides a standardized container for storing high-throughput experimental data along with associated row and column metadata.
-
A.
Bioconductor
Bioconductor is an open-source project that provides R packages and tools for the analysis and comprehension of high-throughput genomic and biological data.
-
B.
Genome Data Viewer
Genome Data Viewer is an NCBI web-based genome browser that allows users to visualize, explore, and analyze annotated genomic sequences and features.
-
C.
OncoAnalytics
OncoAnalytics is a data and analytics platform by Flatiron Health that provides real-world oncology insights to support cancer research and clinical decision-making.
-
D.
GEO DataSets
GEO DataSets is a public NCBI repository that organizes and provides access to curated gene expression and other functional genomics experiment data.
-
E.
Springer Nature Experiments
Springer Nature Experiments is an online platform by Springer Nature that provides curated, searchable experimental protocols and methods for researchers in the life and physical sciences.
- F. None of above. chosen
Provenance (2 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_69d889de677081909b22d2657b1f0292 |
completed | April 10, 2026, 5:25 a.m. |
| NER | Named-entity recognition | batch_69e452d2f79881909556894728e255ab |
completed | April 19, 2026, 3:58 a.m. |
Created at: April 10, 2026, 5:49 a.m.