Over a million developers have joined DZone.

New Bio4j General Domain Model Schema Available

· Database Zone

Build fast, scale big with MongoDB Atlas, a hosted service for the leading NoSQL database. Try it now! Brought to you in partnership with MongoDB.

Hi everyone!

It’s been a few months already since I published the last post but that doesn’t mean that the development process of Bio4j was stopped, but rather, on the contrary, I have been working in the integration of Bio4j with other DB-related projects as well as pipelines and tools. Actually, I’m right now staying in the US for a couple of months working on the implementation and integration of a new database around Bio4j including grasses genomic data as part of a collaboration with the Ohio State University, (I promise to give more details about this and more in next posts).

Ok, but let’s get to the point of this post. Even though there already is available a web tool to explore Bio4j data structure (Bio4jExplorer), I was feeling that something else was missing in order to get the big picture of all the data included and how it’s interrelated. So I got to work and created this general domain model including all node types and relationships (also specifying their cardinality).

I didn’t include “auxiliary” relationships linked to the reference node in order to not pollute the schema with relationships that don’t have any semantic meaning but rather indexing purposes. Also, the text included in both boxes represents different relationships all linking the same nodes – specifically Protein with CommentType and FeatureType. I could have drawn them as the rest but then I would have ended up with a hairball instead of a meaningful schema.

As always, any feedback is welcome!

Now it's easier than ever to get started with MongoDB, the database that allows startups and enterprises alike to rapidly build planet-scale apps. Introducing MongoDB Atlas, the official hosted service for the database on AWS. Try it now! Brought to you in partnership with MongoDB.

Topics:

Published at DZone with permission of Pablo Pareja Tobes, DZone MVB. See the original article here.

Opinions expressed by DZone contributors are their own.

The best of DZone straight to your inbox.

SEE AN EXAMPLE
Please provide a valid email address.

Thanks for subscribing!

Awesome! Check your inbox to verify your email so you can start receiving the latest in tech news and resources.
Subscribe

{{ parent.title || parent.header.title}}

{{ parent.tldr }}

{{ parent.urlSource.name }}