DrugNER annotation

[Chase Master <ch...@gmail.com>]

Hi,

I'm trying to figure out why the DrugNER module excludes NACL or NACL 0.9%
from the medication mentions.  I don't see it on the exclude list (and even
so I've commented out most of the excludes in
dictionaries/dictionary/excludeList for now).   Is it because NACL needs to
be mixed with something else to be considered a medication?  Is there a way
to look at what's included in GAZ_RXNORM?

Thanks

Re: DrugNER annotation

[Chase Master <ch...@gmail.com>]

Thanks,
Do you mean that since it's not specific enough, it didn't generate an
RxNorm code?

Also, I'm wondering why abbreviations like:

 Q<integer>S

every <integer> seconds

Q<integer>M

every <integer> minutes

Q<integer>H

every <integer> hours

Q<integer>D

every <integer> days

Q<integer>W

every <integer> weeks

Q<integer>L

every <integer> months (Lunar cycle)

Q<integer>J<day#>

repeats on a particular day of the week, from the French *jour* (day).  If
<integer> is missing, the repeat rate is assumed to be 1.  Day numbers are
counted from 1=Monday to 7=Sunday.  So Q2J2 means every second Tuesday;
Q1J6 means every Saturday.

And:

S<integer>

=

<integer> seconds

M<integer>

=

<integer> minutes

H<integer>

=

<integer> hours

D<integer>

=

<integer> days

W<integer>

=

<integer> weeks

L<integer>

=

<integer> months

X<integer>

=

<integer> times at interval specified in the order.  A request for 2 blood
cultures Q2H X3 would imply obtaining 2 blood cultures 3 different times at
2-hour intervals for a total of 6 blood cultures.

T<integer>

=

at the interval and amount stated until a total of <integer> “DOSAGE” is
accumulated.  Units would be assumed to be the same as in the QUANTITY
field.

don't appear to be recognized by the drugNER module for frequency or
duration?

Thanks



On Wed, Sep 11, 2013 at 10:17 AM, Murphy, Sean P. [RO BIT] <
Murphy.Sean@mayo.edu> wrote:

>  This is more of a limitation of what the RXNORM UMLS dictionary provides
> (http://rxnav.nlm.nih.gov/).  They do provide tools such as RxNav which
> allows querying medications to see what is available.****
>
>                 Thanks,****
>
>                                 ~Sean****
>
> ** **
>
> *From:* user-return-289-Murphy.Sean=mayo.edu@ctakes.apache.org [mailto:
> user-return-289-Murphy.Sean=mayo.edu@ctakes.apache.org] *On Behalf Of *Chase
> Master
> *Sent:* Wednesday, September 11, 2013 10:12 AM
> *To:* user@ctakes.apache.org
> *Subject:* DrugNER annotation****
>
> ** **
>
> Hi,****
>
> ** **
>
> I'm trying to figure out why the DrugNER module excludes NACL or NACL 0.9%
> from the medication mentions.  I don't see it on the exclude list (and even
> so I've commented out most of the excludes in
> dictionaries/dictionary/excludeList for now).   Is it because NACL needs to
> be mixed with something else to be considered a medication?  Is there a way
> to look at what's included in GAZ_RXNORM? ****
>
> ** **
>
> Thanks****
>

RE: DrugNER annotation

["Murphy, Sean P. [RO BIT]" <Mu...@mayo.edu>]

This is more of a limitation of what the RXNORM UMLS dictionary provides (http://rxnav.nlm.nih.gov/).  They do provide tools such as RxNav which allows querying medications to see what is available.
                Thanks,
                                ~Sean

From: user-return-289-Murphy.Sean=mayo.edu@ctakes.apache.org [mailto:user-return-289-Murphy.Sean=mayo.edu@ctakes.apache.org] On Behalf Of Chase Master
Sent: Wednesday, September 11, 2013 10:12 AM
To: user@ctakes.apache.org
Subject: DrugNER annotation

Hi,

I'm trying to figure out why the DrugNER module excludes NACL or NACL 0.9% from the medication mentions.  I don't see it on the exclude list (and even so I've commented out most of the excludes in dictionaries/dictionary/excludeList for now).   Is it because NACL needs to be mixed with something else to be considered a medication?  Is there a way to look at what's included in GAZ_RXNORM?

Thanks