Pei Chen created CTAKES-375:
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Summary: Including gene mappings in UMLS
Key: CTAKES-375
URL: https://issues.apache.org/jira/browse/CTAKES-375
Project: cTAKES
Issue Type: Improvement
Reporter: Pei Chen
Priority: Minor
Hello cTakers
My name is iker Huerga and I'm a software engineer/data scientist at Memorial
Sloan Kettering in NYC. I've been using cTakes for a while now in some of my
projects and I'd like to contribute the gene/mutations module to the project
I have more than 8 years of Java experience and have contributed to other
apache projects in the past such as Apache Lucene and more recently Apache
Ignite. If someone can create the JIRA ticket and assign it to me (ihuerga)
I'll start working on it
Thanks
Iker
> On Sep 1, 2015, at 9:40 PM, "Savova, Guergana"
> <[email protected]> wrote:
>
> Hi Chris,
> We have not focused on the gene mappings because gene mentions were not very
> frequent in the clinical narrative until several years ago. However, as
> genes/mutations and proteins have become actionable items in both diagnosing
> and treatment, we do have plans to add a module for gene/mutations/protein
> mentions in the very near future. We are likely to start with cancer since
> that domain offers most actionable information and is consistently recorded
> in pathology notes. Contributions are more than welcome.
>
> Is this helping?
> Cheers,
> --Guergana
>
> -----Original Message-----
> From: Mattmann, Chris A (3980) [mailto:[email protected]]
> Sent: Tuesday, September 1, 2015 7:16 PM
> To: [email protected]
> Subject: Including gene mappings in UMLS
>
> Hey cTAKES community,
>
>
>
> Is there any particular reason that you guys didn’t do the mappings
>
> for genes (which exists in UMLS) - but doesn’t seem to exist as
>
> cTAKES concept identifiers (CIDs)?
>
>
>
> Are there any plans to include this in a future release of Apache
>
> cTAKES? We were just wondering.
>
>
>
> Thanks all!
>
>
>
> Cheers,
>
> Chris
>
>
>
> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
>
> Chris Mattmann, Ph.D.
>
> Chief Architect
>
> Instrument Software and Science Data Systems Section (398)
>
> NASA Jet Propulsion Laboratory Pasadena, CA 91109 USA
>
> Office: 168-519, Mailstop: 168-527
>
> Email: [email protected]
>
> WWW:
> https://urldefense.proofpoint.com/v2/url?u=http-3A__sunset.usc.edu_-7Emattmann_&d=BQIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=SeLHlpmrGNnJ9mI2WCgf_wwQk9zL4aIrVmfBoSi-j0kfEcrO4yRGmRCJNAr-rCmP&m=Dq_pRYxsnlvTlbBj114Dbfhjvu-Ps3J0sV5YYJj-S3o&s=NWXiQ1BQ4rFG345QMhfFcVwsFIiy9cmd_8KD9rlGh1w&e=
>
>
> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
>
> Adjunct Associate Professor, Computer Science Department
>
> University of Southern California, Los Angeles, CA 90089 USA
>
> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
>
>
>
>
>
>
>
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