Extracting Protein-Protein Interactions from MEDLINE Using Syntactic Roles

With rapid growth in genomics research in last decade, amount of information a biomedical researcher has to keep track of and understand has increased tremendously. We present a fully automated information extraction system to aid these researchers to identify and locate gene and protein interactions in biomedical text. Our extraction system handles complex sentences and extracts multiple and nested interactions specified in these sentences. Experimental evaluations with two other state of the art extraction systems indicate that the IntEx system achieves better performance without the labor intensive pattern engineering requirement.