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Shock Group NER Replacement

Shock Group NER Replacement. Laura Christiansen. Overview. Currently using MetaMap for NER Types: Experimental Platform, Condition, Cell Type, Molecule, Drug/Chemical Compound/Therapeutic Modality Errors present Trainable alternative

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Shock Group NER Replacement

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  1. Shock GroupNER Replacement Laura Christiansen

  2. Overview • Currently using MetaMap for NER • Types: Experimental Platform, Condition, Cell Type, Molecule, Drug/Chemical Compound/Therapeutic Modality • Errors present • Trainable alternative • Construct new model with ABNER (http://pages.cs.wisc.edu/~bsettles/abner/)

  3. Current Work • Modified ABNER source code • Included additional orthographic feature selection • Updated MALLET usage and references (http://mallet.cs.umass.edu/) • Worked with JLex for ABNER tokenization scanner (http://www.cs.princeton.edu/~appel/modern/java/JLex/) • Incorporating new functionality • Stratified cross validation

  4. Future Work • Finish coding (and buy more coffee) • Test new model with stratified cross validation • Train with modified input from MetaMap-processed abstracts • Format output to be usable with stage 2

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