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From "Hari, Sekhar" <sekhar.h...@cgi.com>
Subject RE: [cancer-informatics] Fwd: BD2K Coordination Center Solicits Hackathon Proposals
Date Thu, 24 Sep 2015 18:39:24 GMT
Hello Chris -

This is impressive. Thanks. One scenario and a question -  I am developing a tool that can
do retrospective records review for adverse events in coded medical records. There are also
statistical analysis reports it can produce in R for the observed adverse events/ triggers.
Can I use Shangridocs to combine the statistical data produced by R in my scenario with biomedical
research publications; e.g: is it possible for a hospital staff (say a trigger reviewer) or
a Chief Medical Officer to ask a question in Shangridocs like - "What is the root cause trend
for adverse events associated with the use of Warfarin in hospitalized patients"?. Because
in my hospital records I see a number of cases where Vitamin K was used to bring down the
INR value to <3. So I will like to know the trend across the globe regarding the root cause
for INR>3.

Thanks,
Sekhar H.
________________________________________
From: Mattmann, Chris A (3980) [chris.a.mattmann@jpl.nasa.gov]
Sent: 24 September 2015 23:31
To: dev@ctakes.apache.org
Cc: user@ctakes.apache.org
Subject: Re: [cancer-informatics] Fwd: BD2K Coordination Center Solicits Hackathon Proposals

Hey Andy,

Sure, the clinical use case is to combine public and private data.
So take a company’s private clinical data, and research, and then
map it e.g.,to public research publications and connect the two.

So the tool I’m talking about is Shangridocs:

http://github.com/chrismattmann/shangridocs/

Would love to chat if people are interested in doing some funding
proposal related to this. I see a big need for it across multiple
domains.

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: chris.a.mattmann@nasa.gov
WWW:  http://sunset.usc.edu/~mattmann/
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Adjunct Associate Professor, Computer Science Department
University of Southern California, Los Angeles, CA 90089 USA
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++





-----Original Message-----
From: andy mcmurry <mcmurry.andy@gmail.com>
Reply-To: "dev@ctakes.apache.org" <dev@ctakes.apache.org>
Date: Saturday, September 19, 2015 at 8:44 PM
To: "dev@ctakes.apache.org" <dev@ctakes.apache.org>
Cc: "user@ctakes.apache.org" <user@ctakes.apache.org>
Subject: Re: [cancer-informatics] Fwd: BD2K Coordination Center Solicits
Hackathon Proposals

>Chris: sounds interesting. could you share some of your clinical use
>cases ?
>
>On Sep 19, 2015 9:27 AM, "Mattmann, Chris A (3980)" <
>chris.a.mattmann@jpl.nasa.gov> wrote:
>>
>> Hey Folks,
>>
>> If anyone wants to discuss how JPL can contribute to a BD2K
>> proposal or if someone is already leading it, I would definitely
>> be interested in contributing. We have been combining Tika, cTAKES,
>> and other software (Spark, OODT) into a solution we call “Shangridocs”
>> which could be quite compelling here.
>>
>> Please feel free to contact me off-line and would love to discuss.
>>
>> 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: chris.a.mattmann@nasa.gov
>> WWW:  http://sunset.usc.edu/~mattmann/
>> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
>> Adjunct Associate Professor, Computer Science Department
>> University of Southern California, Los Angeles, CA 90089 USA
>> ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
>>
>>
>>
>>
>>
>> -----Original Message-----
>> From: andy mcmurry <mcmurry.andy@gmail.com>
>> Reply-To: "user@ctakes.apache.org" <user@ctakes.apache.org>
>> Date: Friday, September 18, 2015 at 4:24 PM
>> To: "dev@ctakes.apache.org" <dev@ctakes.apache.org>
>> Cc: "user@ctakes.apache.org" <user@ctakes.apache.org>
>> Subject: Re: [cancer-informatics] Fwd: BD2K Coordination Center Solicits
>> Hackathon Proposals
>>
>> >+1 , I support the idea of cTAKES as an intermediate step for other
>> >annotation sources, data "mash up".
>> >Phenotypes -- Genes, etc.
>> >
>> >
>> >On Thu, Sep 17, 2015 at 2:52 PM, Wilson, Brian
>> ><BWilson@tuftsmedicalcenter.org> wrote:
>> >
>> >
>> >> > Food for thought :)
>> >
>> >> >
>> >> > The Big Data to Knowledge Coordination Center (BD2KCC) is
>>announcing
>> >> > a call for  hackathon event proposals related to biomedical big
>>data
>> >> > science. The BD2KCC is part of the National Institutes of Health
>> >> > (NIH)’s Big Data to Knowledge (BD2K) program, which is committed
to
>> >> > fostering consortium activities and collaborations among the
>> >> > nationwide BD2K investigator teams. The current request for
>> >> > applications aims to advance the mission of BD2K by inviting
>> >> > proposals to host public hackathon events that will harness broad
>> >> > expertise for the development and application of biomedical big
>>data
>> >> > software tools. Applications for the first round of funding are due
>> >> > October 15th, 2015. More information about this opportunity can be
>> >> > found at:
>> >http://bd2kcc.org/files/hackathons.pdf
>> ><http://bd2kcc.org/files/hackathons.pdf>.
>> >>
>> >>
>> >>
>> >
>> >The information in this e-mail is intended only for the person to whom
>>it
>> >is addressed. If you believe this e-mail was sent to you in error and
>>the
>> >e-mail contains patient information, please contact the Tufts Medical
>> >Center HIPAA Hotline at
>> >(617) 636-4422 <tel:%28617%29%20636-4422>. If the e-mail was sent to
>>you
>> >in error but does not contain patient information, please contact the
>> >sender and properly dispose of the e-mail.
>> >
>> >
>> >
>> >
>> >
>>


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