Hi Peter, I don't have an answer but I do have a question:
In your mrconso.rrf, do you see a snomed line item for "SOB" or only "SOB -Shortness of breath" ? I think that the simple "SOB" and "sob" entries might be from other vocabularies. There is (was?) logic in the dictionary creator to multiply things like "SOB - Shortness of breath", "SOB (Shortness of breath)" etc. and create 3 synonym entries: full, left and right. There is a requirement that the left side be all caps and a fitting acronym for the right side. However, I vacillated on the correctness of this behavior as almost all terms already had the 3 entries. I am not sure what the current version of the creator does. Dictionary creation is indeed a touchy operation. Sean ________________________________________ From: Peter Abramowitsch <pabramowit...@gmail.com> Sent: Thursday, August 13, 2020 11:57 PM To: dev@ctakes.apache.org Subject: Need a little more help on dictionaries [EXTERNAL] * External Email - Caution * Hi All I'm able to create a subset with the UMLS mmsys tool, use the dictionary creator on the full UMLS release, create, install and tweak the scripts adding or removing aliases etc. My goal is simply to add HUGO gene terms to SNOMED and RXNORM. However I must be missing some bit of information on the use of mmsys or the dictionary creator, because some very common terms are missing from my dictionary but present in the released sno_rx As an example, the acronym SOB in mmsys, the term SOB is present in my subset, and it is mapped into SNOMED with the expected CUI 13404 and SNOMEDIDs same as sno_rx I see the cui_tui mapping it into the correct TUI for a finding INSERT INTO TUI VALUES(13404,184) I see the cui and the preferred term "dyspnea" in my *script file, and I can resolve it in a note using the default consumer and obtaining the correct SNOMED ID I see lots of cui_term entries for the same CUI, and I can resolve them too. but SOB is not present in my cui terms. How did it get there? So either - I am not using one of the tools correctly, or in creating SNO_RX, someone has added SOB by hand rather than using the creator. And if they have, they have probably also done other tweaks. Sean, Ghandi or Jeff Can you explain this? Peter
