Triple
T8482775
| Position | Surface form | Disambiguated ID | Type / Status |
|---|---|---|---|
| Subject | UniProt protein sequences |
E200557
|
entity |
| Predicate | format |
P130
|
FINISHED |
| Object |
UniProt flat file
The UniProt flat file is a text-based file format used by the UniProt database to provide detailed, structured annotations and sequence information for proteins.
|
E736819
|
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: UniProt flat file | Statement: [UniProt protein sequences, format, UniProt flat file]
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: UniProt flat file Context triple: [UniProt protein sequences, format, UniProt flat file]
-
A.
UniProt protein sequences
UniProt protein sequences are a comprehensive, curated collection of protein sequence data that serves as a primary reference resource for protein information in biological and biomedical research.
-
B.
Protein database
The Protein database is a curated collection of protein sequences and related functional, structural, and bibliographic information maintained by the National Center for Biotechnology Information (NCBI).
-
C.
GenBank
GenBank is a comprehensive public database of nucleotide sequences and their associated annotation, widely used as a primary resource for genetic and genomic research.
-
D.
NCBI E-utilities API
The NCBI E-utilities API is a set of programmatic web services that allow automated querying, retrieval, and integration of data from NCBI databases such as PubMed.
-
E.
RefSeq
RefSeq is a curated, non-redundant collection of reference DNA, RNA, and protein sequences maintained by the National Center for Biotechnology Information for use in genome annotation and biological research.
- 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: UniProt flat file Triple: [UniProt protein sequences, format, UniProt flat file]
Generated description
The UniProt flat file is a text-based file format used by the UniProt database to provide detailed, structured annotations and sequence information for proteins.
NED2
Entity disambiguation (via description)
gpt-5-mini-2025-08-07
Target entity: UniProt flat file Target entity description: The UniProt flat file is a text-based file format used by the UniProt database to provide detailed, structured annotations and sequence information for proteins.
-
A.
UniProt protein sequences
UniProt protein sequences are a comprehensive, curated collection of protein sequence data that serves as a primary reference resource for protein information in biological and biomedical research.
-
B.
Protein database
The Protein database is a curated collection of protein sequences and related functional, structural, and bibliographic information maintained by the National Center for Biotechnology Information (NCBI).
-
C.
GenBank
GenBank is a comprehensive public database of nucleotide sequences and their associated annotation, widely used as a primary resource for genetic and genomic research.
-
D.
NCBI E-utilities API
The NCBI E-utilities API is a set of programmatic web services that allow automated querying, retrieval, and integration of data from NCBI databases such as PubMed.
-
E.
RefSeq
RefSeq is a curated, non-redundant collection of reference DNA, RNA, and protein sequences maintained by the National Center for Biotechnology Information for use in genome annotation and biological research.
- 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_69ca831b17988190a1f3f3413d57b820 |
completed | March 30, 2026, 2:05 p.m. |
| NER | Named-entity recognition | batch_69cbe53845e881909eeb32863c7aa942 |
completed | March 31, 2026, 3:16 p.m. |
| NED1 | Entity disambiguation (via context triple) | batch_69ce3a2b2e9081909f19712946c6ec20 |
completed | April 2, 2026, 9:43 a.m. |
| NEDg | Description generation | batch_69ce3b4008a0819096bb44b46f510213 |
completed | April 2, 2026, 9:47 a.m. |
| NED2 | Entity disambiguation (via description) | batch_69ce3c000e608190adf1b6499d382529 |
completed | April 2, 2026, 9:50 a.m. |
Created at: March 30, 2026, 6:12 p.m.