Yes! I have been working full time on the "apt-get install" task specific to medical genetics: http://www.ncbi.nlm.nih.gov/medgen
Right now, millions of $$$ are invested in getting phenotype concepts -- indications, diseases, problem lists -- linked to patient test results including DNA / RNA / etc. In industry, most of the curation work is done manually because platforms like cTAKES are not yet immediately accessible. I have written code to A) start automating the installer tasks for cTAKES on Ubuntu 13 B) install UMLS NLP tools metamap, semrep, semmed C) mirror NLM content that extends UMLS annotation *SO THAT : * Mentions of diseases relationships -- SNOMED-CT, HPO, OMIM, GTR, UMLS -- reference the same semantic relationships in UMLS Clinical Terms and Genetic Test Reference. This is powerful and all credit to the NLM for creating MedGen and GTR, new crucial additions to the UMLS. To my knowledge, these new sources have not been fully utilized by the medical NLP community. *I'm strongly advocating for a cTAKES VM that indexes UMLS concepts in the same say that NCBI indexes UMLS linked Medical Genetics terms.* Towards this goal, if other committers are interested, I'm 100% time committed to this problem. *TL;DR*: at minimum, having a demo site makes cTAKES more accessible. We should demonstrate rather than explain every feature of cTAKES. I'm working 100% on the Clinical Text +BioNLP problem. If that interests you, let me know I'm convinced this area has huge, understudied potential. --AndyMC On Tue, Mar 18, 2014 at 8:15 AM, Pei Chen <chen...@apache.org> wrote: > FYI: > ASF Infra is setting up our VM for demo purposes. > INFRA-7451 > > If you need access, feel free to let us now. > Initial maintainers: james-masanz, andymc,chenpei > --Pei >
