SEMANTIC DATA PLATFORM FOR HEALTHCARE. Dr. Philipp Daumke

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1 SEMANTIC DATA PLATFORM FOR HEALTHCARE Dr. Philipp Daumke

2 ABOUT AVERBIS Founded: 2007 Location: Focus: Languages: Current Sectors: Freiburg, Germany Terminology Management, Text Mining, Search multilingual Health, Pharma, Automotive, Publishers & Libraries

3 GENERAL GOALS The aim of SEMCARE (FP7, 2y, 1,5M) is to build a semantic data platform to support patient cohorting across large amounts of (un)structured patient data for primary and secondary use cases Scientific Coordinator, Language Technology Provider, Commercial Exploitation Leading Clinical Partner & Content Provider, Usability & Evaluation Language Technologies for Dutch, Terminology, Clinical Content Provider Terminology/Ontology Expert, Language Technologies for German, Clinical Content Provider Project Manager, Commercial Exploitation, Communication Planning

4 GENERAL GOALS The aim of SEMCARE is to build a semantic data platform to support patient cohorting across large amounts of (un)structured patient data for primary and secondary use cases Identify cohorts based on patientlevel criteria Different use cases in cardiology Gain insights in structured and unstructured data Easy and powerful interfaces for experts and novices Multiple Languages, multiple data privacy regulations Open infrastructure, easy 3rd party integration (e.g. transmart)

5 MAIN COMPONENTS The aim of SEMCARE is to build a semantic data platform to support patient cohorting across large amounts of (un)structured patient data for primary and secondary use cases Services Terminology Management Text Mining Search & Analytics 3rd party applications ETL, Data Integration Data Storage Data Privacy, Anonymization I2B2, transmart EHR4CR

6 MAIN COMPONENTS The aim of SEMCARE is to build a semantic data platform to support patient cohorting across large amounts of (un)structured patient data for primary and secondary use cases Services Terminology Management Text Mining Search & Analytics 3rd party applications ETL, Data Integration Data Storage Data Privacy I2B2, transmart EHR4CR

7 TERMINOLOGY MANAGEMENT

8 TERMINOLOGY MANAGEMENT HEALTHCARE Terminology Categories PHARMA Terminologies Categories ATC Drugs ChEBI Compounds FMA Anatomy ChEMBL Compounds HL7 Misc DrugBank Drugs ICD-10 Indications EntrezGene Genes ICD-O Onc Phenotype Ontology Phenotypes LOINC Lab Uberon M. Anatomy MedDRA Misc Uniprot Genes MeSH Misc OTHERS Terminologies Categories NCI-Thesaurus Misc Agrovoc Agriculture OPS Procedures Averbis Thesaurus Misc RadLex Radiology eclass Products RxNorm Drugs GeoNames Geo SNOMED CT Misc GND Misc UCUM Units ProfiClass Products UMLS Misc Quantities Units

9 TEXT MINING Preprocesing File Readers Information Extraction Diagnosis Writer File Consumer Document Zoning Sentence Detection Tokenizing POS-Tagging Medication Laboratory Values ECG results Abbreviations Search Engine I2B2/tranSMART Tableau, Pentaho, Spotfire, Qlikview Chunking Negation Detection Stemming Date Recognizer Decompounding

10 TEXT MINING

11 OBSERVABLES, NUMBERS, UNITS

12 ECG ANNOTATION EXAMPLE

13 DIAGNOSIS

14 OTHER FINDINGS

15 NUMBERS AND UNITS

16 MODIFIERS (INCL. LEADS)

17 = ECG TYPE

18 DEIDENTIFICATION

19 COHORT FINDER

20 TRANSMART / R

21 TRANSMART OUR EXPERIENCE Version tmdataloader Installed and data loaded within days (thanks to Erlangen!) Easy to be used by Non-Statisticians Limitations No documentation Confusion about versions & their functionalities Some analyses are slow, you have to make sure that you stay logged in No upload for empty numerical values such as age only one numerical variable as independent variable

22 SERVICES The aim of SEMCARE is to build a semantic data platform to support patient cohorting across large amounts of (un)structured patient data for primary and secondary use cases Clinical Care Research Pharma Decision Support Predictive Analytics Feasibility Studies Coding & Billing Hypothesis Validation Patient Recruitment Quality Management Biomarker Validation Commercial Insights for Pharma

23 DECISION SUPPORT Show me all patients eligible for an implantable cardioverter-defibrillator (ICD)

24 DIAGNOSIS SUPPORT Show me all patients with typical Morbus Pompe symptoms, but without a Morbus Pompe diagnosis

25 COST & QUALITY CONTROLLING Show me all patients without secondary diagnosis Parkinson, but with mentionings of Parkinson or the drug Madopar in the EHR

26 COST & QUALITY CONTROLLING Show me all patients without secondary diagnosis Parkinson, but with mentionings of Parkinson or the drug Madopar in the EHR DRG G08B Complex reconstruction of the abdominal wall Fee: 3.390,68 DRG G08A Complex reconstruction of the abdominal wall with severe complications Fee: 5.667,61

27 DATA-DRIVEN PATIENT RECRUITMENT Show me all patients with diabetes mellitus, age between 18 and 70, and symptoms of depression, but without schizophrenia

28 For further questions, please contact: Dr. Philipp Daumke + 49 (0)

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