Groovy script to load snomed data into a neo4j container
Prerequistes: You need to install
- Neo4j at port location: "bolt://localhost:7687", userName: "neo4j", password: "neo4j or what ever you have".Change it in ApplicationProperties
- Install elastic search at the default port
** To start the upload => run Start.groovy
As Neo4j does not index the text, we are using elastic search to index the text and use the conceptId to zero in on a node in Neo4j. Once we and on a node we can navigate tthrough the graph to get the required data and relationships.
Create a simple to setup - set of docker container to populate snomed-ct data into the Neo4j Database.
This code does the following
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Read the snomed description file and create a mapping between the concepts and
- FSN
- Synonym
- Description
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Create a list of Relationship types. To be used to add labels for relationships between nodes.
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In the initial run create concepts with FSA, list of synoyms and descriptions.
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In the third run setup the relationships between the concepts.
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Each of the Concept and Relationship will be indexed both on the description text as well as the Label.
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Concepts will have a "Concept" label.
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Relationship will have a specific relationship label.
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Use elastic search to make the nodes and relationships searchable by text.
Get a Neo4j Database populated with SNOMED-CT international version. (/)
Add an automcomplete, fuzzy search functionality => Created an Elastic search instance with neo4j data. Update uploaded nodes with Reference sets data.
Restful services to access SNOMED-CT data
- Medications Resource
- Problems List Resource
- Allergies Resource
- Diseases Resource
Also Map ICD to Snomed-Ct and LOINC to Snomed-CT expressions.
For a Python version of the same please have a look at https://github.com/pradeepvemulakonda/Snomed
For more information on SNOMED-CT and understand about Medical Terminology go to http://www.vemulakonda.com/2017/05/understanding-snomed-ct-data-model.html