Disease Ontology (DO) Annotations
disease_annotation.RdA structured annotation table mapping Disease Ontology (DOID) identifiers to human-readable disease names and definitions. This dataset is used in the tKOI framework to annotate network nodes associated with disease terms, enabling interpretation of enriched or prioritized disease-related features in biological networks.
Format
A data frame with 10002 rows and 3 columns:
- identifier
A character string representing the Disease Ontology ID (e.g., "DOID:0040003").
- name
The name of the disease (e.g., "benzylpenicillin allergy").
- definition
A detailed textual definition of the disease, including etiology, affected systems, or allergy triggers, often with references to biomedical sources.
Source
Disease Ontology https://disease-ontology.org/
Details
Disease Ontology (DO) provides a standardized, ontology-based representation of human diseases. This dataset allows integration of disease concepts into biological graphs and supports downstream analysis of disease associations.
The identifier column serves as a join key to nodes of type "Disease" in tKOI networks, while the definition column provides biological and clinical context.
Examples
data(disease_annotation)
subset(disease_annotation, grepl("allergy", name))
#> identifier name
#> <char> <char>
#> 1: DOID:0040001 shrimp allergy
#> 2: DOID:0040002 aspirin allergy
#> 3: DOID:0040003 benzylpenicillin allergy
#> 4: DOID:0040004 amoxicillin allergy
#> 5: DOID:0040005 ceftriaxone allergy
#> ---
#> 99: DOID:3660 wheat allergy
#> 100: DOID:4376 milk allergy
#> 101: DOID:4377 egg allergy
#> 102: DOID:4378 peanut allergy
#> 103: DOID:4379 nut allergy
#> definition
#> <char>
#> 1: ""A crustacean allergy that has_allergic_trigger shrimp."" [url:https\\://www.ncbi.nlm.nih.gov/pubmed/20471069] {comment=""IEDB:RV""}
#> 2: ""A drug allergy that has_allergic_trigger acetylsalicylic acid."" [url:https\\://www.ncbi.nlm.nih.gov/pubmed/2468301] {comment=""IEDB:RV""}
#> 3: ""A beta-lactam allergy that has_allergic_trigger benzylpenicillin."" [url:https\\://www.ncbi.nlm.nih.gov/pubmed/14483916] {comment=""IEDB:RV""}
#> 4: ""A beta-lactam allergy that has_allergic_trigger amoxicillin."" [url:https\\://www.ncbi.nlm.nih.gov/pubmed/11746950] {comment=""IEDB:RV""}
#> 5: ""A cephalosporin allergy that has_allergic_trigger ceftriaxone."" [url:https\\://www.ncbi.nlm.nih.gov/pubmed/12833570] {comment=""IEDB:RV""}
#> ---
#> 99: ""A food allergy that develops_from exposure to and particularly consumption of wheat, and has_symptom that are both gastrointestinal and nongastrointestinal in nature, such as diarrhea, mouth and throat irritation, headache, hives, skin rashes, and anaphylaxis."" [url:https\\://www.mayoclinic.org/diseases-conditions/wheat-allergy/symptoms-causes/syc-20378897]
#> 100: ""A food allergy that results in adverse immune reaction to one or more of the proteins in cow's milk and/or the milk of other animals, which are normally harmless to the non-allergic individual."" [url:http\\://en.wikipedia.org/wiki/Milk_hypersensitivity]
#> 101: ""A food allergy that is an allergy or hypersensitivity to dietary substances from the yolk or whites of eggs, causing an overreaction of the immune system which may lead to severe physical symptoms."" [url:http\\://en.wikipedia.org/wiki/Allergy#Foods] {comment=""ls:IEDB""}
#> 102: ""A legume allergy that is an allergy or hypersensitivity to dietary substances from peanuts causing an overreaction of the immune system which in a small percentage of people may lead to severe physical symptoms."" [url:http\\://en.wikipedia.org/wiki/Allergy#Foods] {comment=""ls:IEDB""}
#> 103: ""A food allergy that develops_from exposure to and particularly consumption of nuts, and has_symptom asthma, skin rashes, throat and eye irritation, and anaphylaxis."" [url:https\\://en.wikipedia.org/wiki/Tree_nut_allergy]