Isn't Why do drinks drunk from a glass instead of a bottle taste differently? too subjective to be answered? If there is any difference, the difference depends from too much factors (including the kind of drink), and probably from a personal judgement that can be not shared from somebody else.
Clearly for some drinks there is a difference; that is why the glass used for a wine is chosen basing on the wine you are going to drink. I am not sure that for every drink the reason of the difference, if there are any difference, is the same. The example made in the question is specific for Cola, but the question itself is about any generic drinks (as drinks doesn't mean soda, and drinks is what the title says). Should who answers reply about any kind of drink?
The other problem I see with the question is that is asking for detailed medical links, which none of the given answers so far reports. I don't think there are really medical links that explain the difference, but still, that is what the question is asking.