Why reinvent the wheel? or would this be some sort of a breach since it would then be available to those who have not taken the ethics course?

  • Sorry, I fail to see why those who have not taken the ethics course is relevant here? It is either legal or illegal. – user4293 Feb 11 '18 at 14:48
  • Prerequisite? Ok illegal – user3779753 Feb 13 '18 at 11:51

I trained word embeddings based on mimic, e.g. for https://arxiv.org/abs/1610.09704 and https://arxiv.org/abs/1703.08705, but publicly releasing them would go against the agreement one signs when getting access to mimic. However, they could be made available on https://physionet.org/

  • Thanks so very much for the great idea and all the research on mimic. I assume non mit folks cannot upload anything on physionet but would you be able and kind enough to do so? I am probably already citing a lot of your work and cannot offer much in return, sorry. – user3779753 Feb 13 '18 at 11:50
  • also did you only train it on discharge summaries or was it trained on the entire free text available? – user3779753 Feb 14 '18 at 5:09

Yes, there is a word2vec pre-trained with MIMIC-III and PubMed on Github: https://github.com/ncbi-nlp/BioSentVec

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