Modules Dependencies

[carmen-tm]

About Uniprot KB, GO, UniRef, RefSeq, NCBI Taxonomy and Expasy Enzyme DB Modules.

Afaik modules aren't totally independent between them. On the Domain Model picture seems they are all connected by the protein central node and they keep independent between them, but they don't..

Scheme showing the important dependencies among the modules from Bio4j page

Question: How are these dependencies? I mean are they specific connections between certain particular nodes from different modules? Or are they more generic, like on a global level?

Just a basic understanding in order to express this visually on the Intro Stage: Dependencies info to give a first glance to the database: which modules are included, what are the main relationships between them if relevant, etc on a visual+descriptive way.

[laughedelic]

@carmen-ooo actually, this diagram with modules is outdated and your observation from the Domain Model diagram is right: mostly, things are connected to the Uniprot module. So for example,

• there is an independent UniprotKB module
• there is an independent EnzymeDB module
• there is a connector module, which is dependent on both UniprotKB and EnzymeDB, that adds relationships which involve nodes from different modules.

I had a digram showing it. I guess, it's also outdated, but it gives the idea:

(arrow from A to B means that A depends on B)

[carmen-tm]

Note from meeting 2014-06-04.

• Dependencies are very important, users wise.
• They are local, connecting some nodes with some others.
• From the user interests is important not just one direction A->B (A depends on B), but also the other way (B is connected with all those other things).