pradeepvemulakonda / snomed-groovy

Groovy script to load snomed data into a neo4j container

snomed-groovy

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

• Read the snomed description file and create a mapping between the concepts and

  • FSN
  • Synonym
  • Description

• Create a list of Relationship types. To be used to add labels for relationships between nodes.

• In the initial run create concepts with FSA, list of synoyms and descriptions.

• In the third run setup the relationships between the concepts.

• Each of the Concept and Relationship will be indexed both on the description text as well as the Label.

• Concepts will have a "Concept" label.

• Relationship will have a specific relationship label.

• Use elastic search to make the nodes and relationships searchable by text.

MVP:

Get a Neo4j Database populated with SNOMED-CT international version. (/)

Nice to have:

Add an automcomplete, fuzzy search functionality => Created an Elastic search instance with neo4j data. Update uploaded nodes with Reference sets data.

Next Release:

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