Problems publishing models

We started to use publisher some months ago, and we are having problems in some publications.
In summary, we publish some models initially, and when we publish a second wave, some of the earliest published disappeared and others that are not selected for publication were published.
Is there any relationship between the publication and assignments? Similar to the merge, have a way to say the level of aggregation you wants to take at the time of publication?
Anyone had similar problems?
Fabio Ramos

Tags: Business publisher