+ How to use Monarch Intiative
+
+ The Monarch Initiative is an extensive, cross-species, semantic knowledge
+ graph and ecosystem of tools made for the benefit of informaticians,
+ clinicians, researchers, patients, and more. This section will help you
+ quickly and easily explore the graph on the website, with the API, or
+ using the ecosystem of related tools.
+
+
+
+
+ What do you want to do with Monarch today?
+
+
+
+ Searching for a single gene, disease, or phenotype.
+
+
+ The search bar in the page header allows flexible searching of gene,
+ disease, or phenotype all in one place.
+
+
+
+ -
+ Genes can be searched by common gene name, gene ID, or symbol.
+
+ - Diseases can be searched by name or ID.
+ - Phenotypes can be searched by name or ID.
+
+
+
+ Any of these descriptors can be entered into the search bar directly.
+ Press enter or select a suggestion to search.
+
+
+
+
+
Annotating text with terms from the Monarch KG.
+
+ Annotate a descriptive text containing symptoms or phenotypes with terms
+ from the Monarch KG.
+
+
+
+ -
+ Paste or upload the text containing symptoms or phenotypes in the
+ text box.
+
+ - Click the "Annotate" button.
+ -
+ The results will contain your free text with matching terms replaced
+ with Monarch terms.
+
+
+
+
+
+
+
Compare phenotype profiles.
+
+ Find similar genes or diseases based on phenotypes using the phenotype
+ explorer. You can also use phenotype explorer to compare two phenotype
+ profiles of your own.
+
+
+
+ -
+ Enter the name of a disease or a list of phenotypes in the top
+ search bar
+
+ -
+ Enter another disease, gene, or list of phenotypes you want to
+ compare to
+
+ - Click the "Search" button
+ -
+ The results will contain diseases that match the phenotypes or
+ symptoms you entered.
+
+
+
+
+
+
+
+ Using the Monarch API to integrate the KG into tools.
+
+
+ Monarch provides a RESTful API to access the KG and related services.
+ Here are some of the services built using the Monarch API you can use or
+ to serve as a reference.
+
+
+
+
+
+ Use the buttons above to go directly to the API documentation, the
+ ChatGPT plugin, or the R package. Or see the further information below.
+
+
+ -
+ Monarch provides a RESTful API which we use to develop the website and
+ for other tools we provide. You are welcome to use the API for your
+ own projects. For more information
+ see the API documentation.
+
+ -
+ A ChatGPT plugin uses calls to the Monarch API to process casual
+ language questions about genes, diseases, and phenotypes. The plugin
+ uses the API to get information from the KG on identified terms.
+ Responses are tailored to a more general audience and may be easier
+ for non-experts to understand. For further reading please
+
+ see the announcement paper
+
+ or you can go straight to the
+
+ GitHub repository .
+
+ -
+ The Monarch R package provides easy access, manipulation, and analysis
+ of Monarch KG data resources from R. For more information please see
+ the
+
+ MonarchR GitHub repository .
+
+
+
+
+
More information about the Monarch Initiative.
+
+ Here are some quick links for some of the most frequently requested
+ information about the Monarch Initiative. For additional information,
+ please see
+ our about page .
+
+
+
+
+
+
+ Use the buttons above to go directly to the information listed.
+ Additional information may be available on the about page.
+
+
+
+
+