Connectionists: Important Updates/Final CFP: MEDDOPLACE (place, location & travel NER/linking form health texts) Shared Task

[Martin Krallinger]

Important Updates/Final CFP: MEDDOPLACE (place, location & travel
NER/linking form health texts) Shared Task



- NEW: Annotation guidelines - English version released &  generated corpus
sample for English, French, Italian, Portuguese and Romanian.


   -

   NEW Guidelines English: https://zenodo.org/record/7928146

Info:

   -

   Web: https://temu.bsc.es/meddoplace/
   -

   Registration: https://temu.bsc.es/meddoplace/registration
   -

   Data: https://zenodo.org/record/7707567
   -

   Guidelines Spanish: https://zenodo.org/record/7775235
   -

   CodaLab: https://codalab.lisn.upsaclay.fr/competitions/13017


MOTIVATION

Location information represents one of the most relevant types of entities
for high impact practical NLP solutions, resulting in a variety of
applications adapted to different languages, content types and text genres.

We organize the MEDDOPLACE shared task (Medical Documents PLAce-related
Content Extraction, part of the IberLEF/SEPLN2023 initiative) devoted to
the recognition, normalization and classification of location and
location-related concept mentions for high impact healthcare data mining
scenarios.

For this task we released the MEDDOPLACE corpus of clinical case texts in
Spanish annotated with location-relevant entity mentions, following
annotation guidelines and entity linking procedures.

Practical impact:

   -

   Diagnosis & prognosis: Location information is important for the
   diagnosis or prognosis of some diseases that are more endemic to certain
   regions or particular geographical environments.
   -

   Health risk factors: Geolocation information can be a risk factor in
   case of exposure to radiation, work-related or environmental contaminants
   affecting patients health.
   -

   Mobility: Due to the increasing mobility of populations, detection of
   patients' travels and movements can improve early detection and tracing of
   infectious disease outbreaks, and thus enable taking preventive
   measurements.


The expected results and resources show a multilingual adaptation potential
and impact beyond healthcare (e.g. adaptation to tourism/traveling-related
content or legal texts).

TASKS SUBTRACKS:

   1.

   Location Entity Recognition: detect exact character offsets of all
   location & location-related mentions.
   2.

   Geographic Entity Normalization (Geocoding/Entity Linking): for entity
   mentions, normalize them to their GeoNames (Toponym Resolution),
   PlusCodes (POIs Toponym Resolution) & SNOMED CT (Entity Linking) concept,
   depending on entity type.
   3.

   Entity Subclassification: Classification of entity mentions into four
   subcategories of clinical relevance (patient’s origin place; residence’s
   location; place where the patient has traveled to/from; place where the
   patient has received medical attention)
   4.

   End-to-End: Participant systems are evaluated in all three tasks above
   sequentially instead of being evaluated on their own.

Publications & workshop

Teams participating will be invited to contribute a systems description
paper for the IberLEF (SEPLN 2023) Working Notes proceedings, and a short
presentation of their approach at the IberLEF 2023 workshop, see:
https://temu.bsc.es/meddoplace/publications/.

Tentative Schedule:

   -

   End of evaluation Phase 1: May 31st, 2023
   -

   End of evaluation Phase 2: June 12th, 2023
   -

   Working papers submission: June 14th, 2023
   -

   Notification of acceptance (peer-reviews): June 26th, 2023
   -

   Camera-ready system descriptions: July 5th, 2023
   -

   IberLEF @ SEPLN 2023: September 27th-29th, 2023


Organizers:

   -

   Martin Krallinger, Barcelona Supercomputing Center, Spain
   -

   Salvador Lima, Barcelona Supercomputing Center, Spain
   -

   Eulàlia Farré, Barcelona Supercomputing Center, Spain
   -

   Luis Gascó, Barcelona Supercomputing Center, Spain
   -

   Vicent Briva-Iglesias, D-REAL, Dublin City University, Ireland




=======================================
Martin Krallinger, Dr.
Head of NLP for Biomedical Information Analysis Unit
Barcelona Supercomputing Center (BSC-CNS)
https://www.linkedin.com/in/martin-krallinger-85495920/
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