1. Clinical NLP in North Germanic Languages
Clinical NLP in Languages Other Than English
S07
Sumithra Velupillai
KTH, Sweden & King’s College, London
Twitter: #AMIA2017

2. Disclosure
I and my spouse/partner have no relevant relationships with commercial interests to disclose.
AMIA | amia.org

3. Clinical NLP in North Germanic Languages
This part of the panel will focus on:
Swedish, Danish, Norwegian
Past and ongoing projects
Examples

4. HEALTH BANK –The Swedish Health Research Bank (Stockholm EPR Corpus)
Karolinska University Hospital
TakeCare Intelligence
First ethical permission 2008, now on 7th
First database , 4th to 2014
~ 2 million patient records
Now also in the process of being linked to primary care data
Prof. Hercules Dalianis, Dept. Computer and Systems Sciences:

5. Health record content Randomized identification number, gender, age
Documentation date stamps
Blood, laboratory values, ICD-10 codes
Drugs – ATC-codes
Free-text
Physician notes, nursing notes, radiology reports, etc.

6. Projects and Applications
Automatic surveillance of healthcare-associated infections
Detection and exploration of adverse drug events
Diagnosis code assignment (ICD-10)
Text mining in the cancer domain (Cervical cancer, pathology)
Text simplification of clinical narratives
Clinical entity recognition, semantic modifiers (negation, uncertainty, time expressions)
Comorbidity analysis
Publications:

7. Example modules Symptom and diagnosis Negation Uncertainty
Time information
76-årig kvinna med hypertoni och angina pectoris. Trolig hjärtinfarkt 2 år sedan. Inkommer med centrala bröstsmärtor utan utstrålning.
76-year old woman with hypertension and angina pectoris. Possible heart attack 2 years ago. Admitted to hospital with central chest pain without radiation.

8. Example modules Symptom and diagnosis Negation Uncertainty
Time information
76-årig kvinna med hypertoni och angina pectoris. Trolig hjärtinfarkt 2 år sedan. Inkommer med centrala bröstsmärtor utan utstrålning.
76-year old woman with hypertension and angina pectoris. Possible heart attack 2 years ago. Admitted to hospital with central chest pain without radiation.

9. Example modules Symptom and diagnosis Negation Uncertainty
Time information
76-årig kvinna med hypertoni och angina pectoris. Trolig hjärtinfarkt 2 år sedan. Inkommer med centrala bröstsmärtor utan utstrålning.
76-year old woman with hypertension and angina pectoris. Possible heart attack 2 years ago. Admitted to hospital with central chest pain without radiation.

10. Example modules Symptom and diagnosis Negation Uncertainty
Time information
76-årig kvinna med hypertoni och angina pectoris. Trolig hjärtinfarkt 2 år sedan. Inkommer med centrala bröstsmärtor utan utstrålning.
76-year old woman with hypertension and angina pectoris. Possible heart attack 2 years ago. Admitted to hospital with central chest pain without radiation.

11. Example modules Symptom and diagnosis Negation Uncertainty
Time information
76-årig kvinna med hypertoni och angina pectoris. Trolig hjärtinfarkt 2 år sedan. Inkommer med centrala bröstsmärtor utan utstrålning.
76-year old woman with hypertension and angina pectoris. Possible heart attack 2 years ago. Admitted to hospital with central chest pain without radiation.

12. Example modules Symptom and diagnosis Negation Uncertainty
Time information
76-årig kvinna med hypertoni och angina pectoris. Trolig hjärtinfarkt 2 år sedan. Inkommer med centrala bröstsmärtor utan utstrålning.
76-year old woman with hypertension and angina pectoris. Possible heart attack 2 years ago. Admitted to hospital with central chest pain without radiation.

13. Danish – Dictionary construction for ADE
Danish summaries of product characteristics – undesirable effects
Group-based lexicon
7 groups, e.g. independent event, location, preposition
4 groups for filtering, e.g. negation, temporal triggers
Post-coordination rules
Tested on Danish psychiatric records
Eriksson R1, Jensen PB, Frankild S, Jensen LJ, Brunak S. Dictionary construction and identification of possible adverse drug events in Danish clinical narrative text. J Am Med Inform Assoc Sep-Oct;20(5): doi: /amiajnl Epub 2013 May 23.

14. BigMed - Norway
Lighthouse project funded by Norwegian Resource Council
Goal: novel big data solution that integrates patients’ records information, genomics data and lab data, as well as all scientific publications.
Multidisciplinary team - ICT, biomedical, law and health economy researchers and industrial partners.
Contact: Lilja Øvrelid:

15. BigMed - Norway

16. Opportunities and Challenges
Resources in non-English languages
Annotated corpora, lexicons, rule-based modules
Aggregated data analysis and visualization (no PHI)
Still limited formal resources (e.g. UMLS)
Existing resources specific to dataset
Language-specific challenges:
compounds
word order
inflections

17. Email me at: sumithra@kth.se
Thank you!
me at: