Triple
T17521716
| Position | Surface form | Disambiguated ID | Type / Status |
|---|---|---|---|
| Subject | Bioconductor |
E426691
|
entity |
| Predicate | hasComponent |
P35
|
FINISHED |
| Object | DESeq2 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: DESeq2 package | Statement: [Bioconductor, hasComponent, DESeq2 package]
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: DESeq2 package Context triple: [Bioconductor, hasComponent, DESeq2 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.
NGS
NGS is the National Geodetic Survey, the U.S. federal agency responsible for defining and managing the national coordinate system used for mapping, navigation, and surveying.
-
D.
NGS
NGS is the abbreviation for the Nasdaq Global Select Market, a premier tier of the Nasdaq stock exchange that lists companies meeting the highest financial and corporate governance standards.
-
E.
NGS
NGS is the IATA airport code for Nagasaki Airport in Japan.
- 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: DESeq2 package Target entity description: The DESeq2 package is a widely used Bioconductor tool for analyzing differential gene expression from count-based high-throughput sequencing data using robust statistical methods.
-
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.
NGS
NGS is the National Geodetic Survey, the U.S. federal agency responsible for defining and managing the national coordinate system used for mapping, navigation, and surveying.
-
D.
NGS
NGS is the IATA airport code for Nagasaki Airport in Japan.
-
E.
NGS
NGS is the abbreviation for the Nasdaq Global Select Market, a premier tier of the Nasdaq stock exchange that lists companies meeting the highest financial and corporate governance standards.
- 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.