cTAKES: Demo Clinical Text Analysis and Knowledge Extraction System

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Presentation transcript:

cTAKES: Demo Clinical Text Analysis and Knowledge Extraction System James Masanz Mayo Clinic

UIMA CAS Visual Debugger (CVD) Provided by / part of UIMA Run a pipeline against free text With appropriate 1st annotator, against XML such as CDA document View annotations created (“debugger”) Export annotations to XML (XCAS or XMI)

cTAKES: Components Sentence boundary detection (OpenNLP technology) Tokenization (rule-based) Morphologic normalization (NLM’s LVG) POS tagging (OpenNLP technology) Shallow parsing (OpenNLP technology) Named Entity Recognition Negation and context identification (NegEx) Dependency parser Drug Profile module Smoking status classifier CEM normalization module

Extend Earlier Example Tamoxifen 20 mg po daily started on March 1, 2005 for 6 mo. Aspirin prn. Fx history of breast cancer. History of migraines.

Sentences

Tokens

Chunks

Windows for Lookup

Named Entity

Questions?

Live Demo of CVD