Jay, software engineer using NEO4J in Biomedical applications

[jayped007]

Hi,

My name is Jay and I am a software developer at the University of Nebraska Medical Center (UNMC).

We have been using NEO4J for storage and querying of medical terminologies like SNOMED CT. SNOMED CT is a semantic terminology which is not a simple hierarchical tree. NEO4J allows this terminology to be represented in its full definition and allows it to be queried using graph queries.

Greetings to all, and I am very glad to be part of this group.

Here is a link to software in GITHUB which we developed at UNMC that loads a SNOMED CT release into a NEO4J graph: It is python-based and uses the py2neo library to interface with NEO4J.

GitHub

IHTSDO/snomed-database-loader

Represent SNOMED CT in a different types of databases - IHTSDO/snomed-database-loader

Jay

[michael_hunger]

Hi Jay,

this is really cool, do you have an article somewhere that describes your work in more detail?
Esp. with examples for querying and integration in other systems?

Cheers, Michael

[jayped007]

Hi Michael,

There is a paper that describes this work, actually from a couple of years ago. We have continued to use NEO4J for Biomedical applications including the use for tracking tissues in a Biobank.

An alternative database approach for management of SNOMED CT and improved patient data queries
WS Campbell, J Pedersen, JC McClay, P Rao, D Bastola, JR Campbell
Journal of biomedical informatics 57, 350-357

I think this link should work for examining the paper.

core.ac.uk

81119832.pdf

822.76 KB

Jay