Some authors use pretrained embeddings (especially when their data set is too small to train their own embeddings) or try to modify these embeddings and adjust to their set. But the biggest drawback of these approaches is that the corpus for training embeddings can be not related to the specific task where embeddings are utilized. A lot of medical concepts are not contained in well-known embeddings bases. Furthermore, the similarity of words may vary in different contexts. Then, we compute embeddings of concepts (by GloVe) for interview descriptions and for examination descriptions separately. 
 Question: Do they fine-tune the used word embeddings on their medical texts?
No