How to extract "Genetic Regulation Schematic" network edges from EcoCyc flat files?
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4.9 years ago
O.rka ▴ 710

I've downloaded the flat files from EcoCyc and got an ecoyc.ocelot format that I THINK contains the network structure but I'm not sure. Is there any way to extract the nodes and edges that go into the back end of EcoCyc?

Here is one example of a network from EcoCyc. I'm not sure where this info is in the flat files or how to extract this information from the existing files.

image https://ecocyc.org/gene?orgid=ECOLI&id=HYAA-MONOMER

Essentially, I'm just trying to get a table that has edge connections such as the following:

[protein_A] [protein_B] [connection type] [weight (if this is relevant)]

Here's a list of the files that I have from EcoCyc:

enter image description here

genome • 773 views
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