Hello, is there an OHDSI tool/code I can use to find Lines of Therapy that is used in oncology? From what I can tell, ATLAS doesn’t quite do this. I have found the RegimenFinder on GitHub. It is helpful because finding the regimens is the first part of the Line of Therapy process. What is lacking is the find the number (for example Line 1, Line 2, etc) for the regimens. Any help here would be greatly appreciated?
Conventions for oncology-specific use of OMOP are a work in progress. For lines of therapy use the Episode table. The field you are looking for there is episode_number. We expect to have both disease episodes and treatment episodes. The episode_concept_id in the Episode table comes from the Episode domain. For a line of therapy the episode_concept_id would be Treatment Regimen.
The episode_object_concept_id contains the regimen, from the Regimen domain.
You can find some existing OMOP Oncology documentation here.
Thank you so much. This is very helpful. I have noticed that the episode table is not something that can be selected in ATLAS. Is there a work-around for that?
How do you put all this together? In other words, how can I populate the episode table with lines of therapy? Any help is greatly appreciated.
You are correct about ATLAS. At the moment, ATLAS does not support using Episode for cohort development. Until we get there, we use SQL and R in our studies to use information coming form the Episode Tables.
There are several efforts in deriving regimens and further lines of therapy from drug level data. We have developed a tool called ARTEMIS that allows you to derive treatment regimens and have tested its performance across a few databases. There is ongoing work on updating the tool and adding more functionalities. Please come to the Oncology WG and bring your use cases. We can show you what has been done and help you with your use cases.
Thanks!