GEO DataSets
E569121
GEO DataSets is a public NCBI repository that organizes and provides access to curated gene expression and other functional genomics experiment data.
All labels observed (4)
| Label | Occurrences |
|---|---|
| GEO DataSets canonical | 2 |
| NCBI GEO | 1 |
| NCBI Gene Expression Omnibus | 1 |
| modENCODE Data Coordination Center | 1 |
How this entity was disambiguated
This entity first appeared as the object of triple T6098287 — 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: GEO DataSets Context triple: [Entrez system, hasPart, GEO DataSets]
-
A.
GEO reports
GEO reports are flagship United Nations environmental assessment publications that periodically evaluate the state of the global environment, emerging trends, and policy options for sustainable development.
-
B.
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.
-
C.
GAW World Data Centres
GAW World Data Centres are specialized international facilities that collect, manage, and distribute atmospheric and environmental data to support the scientific and monitoring activities of the Global Atmosphere Watch program.
-
D.
Dataverse
Dataverse is Microsoft's cloud-based data platform that securely stores, manages, and structures business data for use across Power Platform applications and services.
-
E.
Open Data Index
Open Data Index is a global initiative that evaluates and ranks the openness and accessibility of government data across countries.
- 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: GEO DataSets Target entity description: GEO DataSets is a public NCBI repository that organizes and provides access to curated gene expression and other functional genomics experiment data.
-
A.
GEO reports
GEO reports are flagship United Nations environmental assessment publications that periodically evaluate the state of the global environment, emerging trends, and policy options for sustainable development.
-
B.
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.
-
C.
GAW World Data Centres
GAW World Data Centres are specialized international facilities that collect, manage, and distribute atmospheric and environmental data to support the scientific and monitoring activities of the Global Atmosphere Watch program.
-
D.
Dataverse
Dataverse is Microsoft's cloud-based data platform that securely stores, manages, and structures business data for use across Power Platform applications and services.
-
E.
Open Data Index
Open Data Index is a global initiative that evaluates and ranks the openness and accessibility of government data across countries.
- F. None of above. chosen
Statements (66)
| Predicate | Object |
|---|---|
| instanceOf |
biological database
ⓘ
functional genomics repository ⓘ gene expression database ⓘ |
| accessibleAt | https://www.ncbi.nlm.nih.gov/gds ⓘ |
| accessibleVia |
FTP
ⓘ
NCBI E-utilities API ⓘ web interface ⓘ |
| accessRestriction | no login required for data download ⓘ |
| contains |
curated experiment records
ⓘ
platform records ⓘ sample records ⓘ series records ⓘ supplementary files ⓘ |
| countryOfOperator |
United States
ⓘ
linked to:
United States of America
|
| dataCuration |
annotated with controlled vocabularies
ⓘ
curated by NCBI staff ⓘ |
| dataModel |
GDS (GEO DataSet) records
ⓘ
GPL (GEO Platform) records ⓘ GSE (GEO Series) records ⓘ GSM (GEO Sample) records ⓘ |
| dataSource |
submitted experiments from consortia
ⓘ
submitted experiments from research laboratories ⓘ submitted experiments from sequencing centers ⓘ |
| hasFeature |
downloadable data tables
ⓘ
field-specific search filters ⓘ links to related NCBI resources ⓘ searchable metadata ⓘ text-based search ⓘ |
| hasIdentifierPattern |
GDSnnnnn
ⓘ
GPLnnnnn ⓘ GSEnnnnn ⓘ GSMnnnnn ⓘ |
| hostedOn | NCBI servers ⓘ |
| license | free public access ⓘ |
| linkedTo |
NCBI Gene database
ⓘ
NCBI PubMed ⓘ
linked to:
PubMed
NCBI SRA ⓘ |
| locatedIn | Bethesda, Maryland ⓘ |
| maintainedBy | National Center for Biotechnology Information ⓘ |
| operatedBy | NCBI ⓘ |
| partOf |
NCBI Gene Expression Omnibus
ⓘ
linked to:
Gene Expression Omnibus
|
| primaryUse |
benchmarking of bioinformatics methods
ⓘ
hypothesis generation ⓘ meta-analysis of gene expression ⓘ secondary analysis of public genomics data ⓘ |
| qualityControl |
basic validation checks
ⓘ
curatorial review for curated DataSets ⓘ |
| storesDataType |
ChIP-Seq data
ⓘ
RNA-Seq data ⓘ gene expression data ⓘ methylation data ⓘ microarray data ⓘ other functional genomics data ⓘ |
| subjectOf |
functional genomics
ⓘ
gene expression profiling ⓘ |
| supportsOrganism |
Arabidopsis thaliana
ⓘ
Drosophila melanogaster ⓘ Homo sapiens ⓘ Mus musculus ⓘ
linked to:
house mouse (Mus musculus)
Rattus norvegicus ⓘ
linked to:
Norway rat (Rattus norvegicus)
Saccharomyces cerevisiae ⓘ many other species ⓘ |
| usedIn |
biomarker discovery
ⓘ
disease classification studies ⓘ drug response studies ⓘ transcriptomics research ⓘ |
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: GEO DataSets Description of subject: GEO DataSets is a public NCBI repository that organizes and provides access to curated gene expression and other functional genomics experiment data.
Referenced by (5)
Full triples — surface form annotated when it differs from this entity's canonical label.
linked to: GEO DataSets
linked to: GEO DataSets
linked to: GEO DataSets