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[bioontology-support] NCBO virtual appliance access request

Clement Jonquet jonquet at
Thu Jan 11 11:52:22 PST 2018

Hello Jean-Baptiste, 

For the data in English (MIMIC) indeed, you might have to use the NCBO Virtual Appliance or if the data is public directly the NCBO Annotator.

For data in French, you might be aware of our SIFR BioPortal project which goal is to build a French Annotator: <>

We have also now a Docker compose installation that allow to install locally the services. We actually deployed it already within HEGP’s server for the ANR PractikPharma project. 
(I shall detail this in another message)

Clement Jonquet

> Le 9 janv. 2018 à 11:07, Jean-Baptiste Escudié <jb.escudie at> a écrit :
> Dear bioontology support team,
> I'd like to get access to the NCBO virtual appliance. My goal is to annotate large copora of clinical documents starting with the MIMIC III database, then clinical data warehouse of the public parisian hospitals which documents can be annotated with the REST API for confidentiality reasons.
> Best regards,
> Jean-Baptiste
> Bioportal account login is jb.escudie
> _______________________________________________
> bioontology-support mailing list
> bioontology-support at

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