hie-synthetic-data

This repo contains:

• A set of clincial terms for substance abuse and mental health, mapped into a knowledge graph. These terms are called Part 2 data, in reference to 42 Code of Federal Regulations Part 2, which is intended to safeguard this kind of sensitive health information. More about HIPAA and Part 2 here.
• Scripts to generate synthetic claims data. The data is output in ttl format, and can then be linked to the Part 2 graph on SNOMED-CT terms.

HIPAA Part 2 Knowledge Graph

We classified the NIH value sets to identify clinical terms associated with Substance Abuse and Mental Health as shown in the table. The complete list of terms is available here in Excel.

Clinical Terminology	Diagnosis	Finding	History	Lab	Medication	Procedure	Total
CPT1	0	0	0	0	0	48	48
HCPCS2	0	0	0	0	0	59	59
ICD-10-CM3	893	0	0	0	0	0	893
ICD-9-CM4	522	0	0	0	0	0	522
LOINC5	0	0	0	1311	0	0	1311
RXNORM6	0	0	0	0	129	0	129
SNOMED-CT7	1538	493	17	0	0	0	2048
Grand Total	2953	493	17	1311	129	107	5010

[1]: Current Procedural Terminology
[2]: Healthcare Common Procedure Coding System
[3]: International Classification of Diseases, 10th Revision, Clinical Modification
[4]: International Classification of Diseases, 9th Revision, Clinical Modification
[5]: Logical Observation Identifiers Names and Codes
[6]: RxNorm
[7]: Systematized Nomenclature of Medicine - Clinical Terms

We translated this categorization into the knowledge graph:

This results in the ability to link to claims that contain clinical terms:

An example:

Generating Ad Hoc Claims data in RDF Format

In the ad-hoc-claims folder are shell and python scripts for generating data in Synthea-RDF format.

• Shell scripts for generating synthetic data for six hospitals
• Python scripts to convert synthetic data to RDF format