I am not sure that I am following the question entirely.
The flowable-modeler application is an entirely standalone application that has its own database persistence. This means that the only way for you to see the models in flowable-rest is to publish them from the modeler.
So flowable-modeler is using the ACT_DE_MODEL tables while the models part of flowable-rest uses the ACT_RE_MODEL table.
When an app is deloyed using flowable-modeler the models are persisted in the ACT_APP_DEPLOYMENT_RESOURCE table. Therefore the ACT_RE_MODEL table remains empty and queries to flowable-rest do not return any models.