Phenotypes
Purpose of Search
Retrieve a list of phenotypes in studies by searching for MeSH and HPO ontology terms.
Base URL
http://www.gwascentral.org/phenotypes
In addition to the common Search parameters, phenotype searches also have the following additional parameters:
| Parameter | Description | Optional/Required | Allowed values |
|---|---|---|---|
| pid | Phenotype ontology identifiers | Optional | One or more MeSH or HPO identifier strings |
| page | Page of results to retrieve | Optional (default is 1) | Depends on number of results |
| page_size | Size of results page to retrieve | Optional (default is 50) | 20, 50, 100 or all |
Data Content
Atom feeds provide the data for each entry in the ‘content’ tag as XML, while text-file formats/Excel provide it in columns.
The most pertinent fields available in each phenotype result are as follows
| Name | Description | Example |
|---|---|---|
| namePhenotype method namePhenotype method for pancreatic cancer | ||
| descriptionPhenotype method descriptionPlease refer to the original paper for details | ||
| identifierPhenotype method identifierHGVPM693 | ||
| no_pvaluesNumber of p-values in associated experiment3 | ||
phenotype_annotationsInformation related to a single phenotype ontology a phenotype is annotated to.Atom XML example:
<annotation_detail>"Schizophrenia" D012559</annotation_detail>
<annotation_identifier>D012559</annotation_identifier>
<annotation_label>Schizophrenia</annotation_label>
<annotation_type>MeSH</annotation_type>
|
||
| phenotypepropertyPhenotype property namePancreatic cancer | ||
| resultsetsIdentifiers for those result sets in experimentHGVRS763 | ||
| study_identifierIdentifier of study containing phenotypeHGVST407 | ||
| study_nameName of study containing phenotypeGWAS of pancreatic cancer |
Examples
Ontology terms
Search for phenotypes in studies restricted to ontology terms matching ‘type II diabetes mellitus’ with -log p-values >=7, return JSON format:
http://www.gwascentral.org/phenotypes?q=type II diabetes mellitus&t=7&format=json&
