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Re: ClinicalTrial Schema

From: Paola Di Maio <paola.dimaio@gmail.com>
Date: Sun, 24 Mar 2019 18:16:23 +0800
Message-ID: <CAMXe=SqNrvVSoghM-7yCyB95V5zjMs5EeHYCfB4O1mnBPjs93w@mail.gmail.com>
To: Nolan Nichols <nichols.nolan@gene.com>
Cc: "schema.org Mailing List" <public-schemaorg@w3.org>
Dear Nolan
Thanks for sharing. I am working on Research Protocols, and feel the same
I wonder if you would consider a research protocol ( biomed research
protocol, but there  I wonder if we should generalize ) a similar enough
case to a clinical trial and should we join forces, or
not . Let me know what you think

On Sun, Mar 24, 2019 at 8:57 AM Nolan Nichols <nichols.nolan@gene.com>

> Hi All,
> I've started looking into creating a schema of clinical trial metadata
> using schema.org and mapping instances from public repositories (e.g.,
> clinicaltrials.gov), to a clinical trial schema that could then be
> published to datacommons.org.
> From what I see, it looks like a good starting point would be to build on
> what has already been defined in the health-lifesci group with
> schema.org:MedicalTrial <https://health-lifesci.schema.org/MedicalTrial>.
> There are a handful of attempts at doing something similar elsewhere, such
> as:
> - Wikidata ClinicalTrial
> <https://www.wikidata.org/wiki/Wikidata:WikiProject_Medicine/Data_models/Trials>
> - Clinical Trial Data as RDF
> <https://github.com/phuse-org/CTDasRDF/blob/master/doc/HandsOnCreateTriplesFromOWL.md#more-ts-mapping>
> - Open Trials <https://opentrials.net/>
> - Linked CT <http://linkedct.org/> - broken ;-(
> While those efforts capture semantics, others provide a pretty clean
> tabular representation of clinical trial metadata like the AACT database
> <https://aact.ctti-clinicaltrials.org/>.
> I'd love to start a conversation about how we can create a schema for
> clinical trials that fits into the schema.org vision and can publish
> useful information like what is in the AACT database as linked data.
> I took the humble approach of defining a few terms that would extend the
> schema of datacommons.org to capture just a single attribute of a trial
> (i.e., phase). I submitted this as a PR
> <https://github.com/google/datacommons/pull/41>.
> I would love to get feedback on how I can move this idea forward and work
> with this community to define a schema that could be used to publish
> information about clinical trials.
> Cheers,
> Nolan
> --
> Nolan Nichols, PhD
> Bioinformatics & Computational Biology
> Genentech, Inc.
> nichols.nolan@gene.com
> https://orcid.org/0000-0003-1099-3328
Received on Sunday, 24 March 2019 10:17:23 UTC

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