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In an ideal world the EHR systems would associate all encounters, procedures, medications with a condition, however this is not the case in reality. Large portions of real-world record data is unassociated, causing the Condition based UI to be sparsely populated & useless. In addition, this doesn't account for Patients that have not recieved a diagnosis yet -- they might have symptions & diagnostic procedures that they are tracking, without a known "root cause" and this might go on for years.
With an Encounter Timeline based UI, we can allow patients to "tag" encounters with a condition after the fact (in a pretty intuitive UI).
We can also allow patients to add comments & attach documents to a specific encounter