UniRef
E736815
UniRef is a set of clustered protein sequence databases derived from UniProt that group similar sequences to reduce redundancy and speed up sequence similarity searches.
All labels observed (3)
How this entity was disambiguated
This entity first appeared as the object of triple T8482752 — resolving that mention is where its identity was fixed. The disambiguator weighed these candidate entities and picked the highlighted one (or “None”, minting a new entity). This is how homonymy is resolved: the same surface form can point to different entities.
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: UniRef Context triple: [UniProt protein sequences, organizedIn, UniRef]
-
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.
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.
-
E.
UniGene database
The UniGene database is a now-retired NCBI resource that organized expressed sequence tags and other gene-oriented sequence data into non-redundant clusters representing unique genes in a given organism.
- 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: UniRef Target entity description: UniRef is a set of clustered protein sequence databases derived from UniProt that group similar sequences to reduce redundancy and speed up sequence similarity searches.
-
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.
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.
-
E.
UniGene database
The UniGene database is a now-retired NCBI resource that organized expressed sequence tags and other gene-oriented sequence data into non-redundant clusters representing unique genes in a given organism.
- F. None of above. chosen
Statements (46)
| Predicate | Object |
|---|---|
| instanceOf |
bioinformatics resource
ⓘ
protein sequence database ⓘ |
| accessMethod |
FTP download
ⓘ
programmatic access ⓘ web interface ⓘ |
| aggregationLevel |
100 percent identity clusters
ⓘ
50 percent identity clusters ⓘ 90 percent identity clusters ⓘ |
| clusteringCriterion | sequence identity ⓘ |
| clusteringMethod | sequence clustering ⓘ |
| dataSource |
Swiss-Prot
ⓘ
linked to:
UniProtKB/Swiss-Prot
TrEMBL ⓘ UniParc ⓘ UniProtKB ⓘ
linked to:
UniProt Knowledgebase
|
| dataType |
cluster membership information
ⓘ
cluster representative sequence ⓘ protein sequence ⓘ |
| dataUpdateFrequency | synchronized with UniProt releases ⓘ |
| derivedFrom |
UniProt
ⓘ
linked to:
UniProt Knowledgebase
|
| domain |
computational biology
ⓘ
proteomics ⓘ |
| hasPart |
UniRef100
ⓘ
linked to:
UniRef
UniRef50 ⓘ UniRef90 ⓘ
linked to:
UniRef
|
| hasURL | https://www.uniprot.org/help/uniref ⓘ |
| implementedIn | relational database system ⓘ |
| license | free for academic use ⓘ |
| maintainedBy | UniProt Consortium ⓘ |
| organismCoverage | all taxa in UniProt ⓘ |
| provides |
links to UniProt entries
ⓘ
non-redundant protein sequence sets ⓘ sequence identifiers ⓘ |
| purpose |
reduce sequence redundancy
ⓘ
speed up sequence similarity searches ⓘ |
| relatedTo |
UniMES
ⓘ
linked to:
UniME
UniParc ⓘ UniProtKB ⓘ
linked to:
UniProt Knowledgebase
|
| supports |
database indexing for similarity search tools
ⓘ
high-throughput sequence analysis pipelines ⓘ |
| typicalUseWith |
BLAST
ⓘ
DIAMOND ⓘ HMMER ⓘ |
| usedFor |
functional annotation transfer
ⓘ
large-scale sequence analysis ⓘ metagenomic analysis ⓘ sequence similarity search ⓘ |
How these facts were elicited
The pipeline generated the facts above by prompting gpt-5.1 with this entity's name + description and the instruction below.
Instruction
You are a knowledge base construction expert. Given a subject entity and a description of it, return factual statements that you know for the subject as a JSON list of dictionaries(triples), where keys must be "subject", "predicate" and "object". The number of facts may be very high, between 25 to 50 or more, for very popular subjects. For less popular subjects, the number of facts can be very low, like 5 or 10. # Requirements - If you don't know the subject at all, return an empty list. - If the subject is not a named entity, return an empty list. - Include at least one triple where predicate is "instanceOf". - Do not get too wordy. - Separate several objects into multiple triples with one object.
Input
Subject: UniRef Description of subject: UniRef is a set of clustered protein sequence databases derived from UniProt that group similar sequences to reduce redundancy and speed up sequence similarity searches.
Referenced by (7)
Full triples — surface form annotated when it differs from this entity's canonical label.
linked to: UniRef
linked to: UniRef