Bioinformatics
Bioinformatics concerns the development of computer databases and algorithms for learning, managing and processing biological information. Currently we are focusing on extracting structured information such as protein names and relationships from biological documents using natural language learning for information extraction.

By mining over 750,000 Medline abstracts for human protein interactions and integrating the results with existing databases, we have developed a fairly comprehensive database of 31,609 known human protein interactions. The resulting database is accessible though a web interface at Human Gene ID-SERVE

Publications (10)
Discriminative Structure and Parameter Learning for Markov Logic Networks 2008
Tuyen N. Huynh and Raymond J. Mooney
MARLEDA: Effective Distribution Estimation Through Markov Random Fields 2007
Matthew Alden
Integrating Co-occurrence Statistics with Information Extraction for Robust Retrieval of Protein Interactions from Medline 2006
Razvan Bunescu, Raymond Mooney, Arun Ramani and Edward Marcotte
Comparative Experiments on Learning Information Extractors for Proteins and their Interactions 2005
Razvan Bunescu, Ruifang Ge, Rohit J. Kate, Edward M. Marcotte, Raymond J. Mooney, Arun Kumar Ramani, and Yuk Wah Wong
Consolidating the Set of Known Human Protein-Protein Interactions in Preparation for Large-Scale Mapping of the Human Interactome 2005
A.K. Ramani, R.C. Bunescu, Raymond J. Mooney and E.M. Marcotte
Using Biomedical Literature Mining to Consolidate the Set of Known Human Protein-Protein Interactions 2005
A. Ramani, E. Marcotte, R. Bunescu and Raymond J. Mooney
Collective Information Extraction with Relational Markov Networks 2004
Razvan Bunescu and Raymond J. Mooney
Relational Markov Networks for Collective Information Extraction 2004
Razvan Bunescu and Raymond J. Mooney
Learning to Extract Proteins and their Interactions from Medline Abstracts 2003
Razvan Bunescu, Ruifang Ge, Rohit J. Kate, Raymond J. Mooney, Yuk Wah Wong, Edward M. Marcotte, and Arun Kumar Ramani
Extracting Gene and Protein Names from Biomedical Abstracts 2002
Razvan Bunescu, Ruifang Ge, Raymond J. Mooney, Edward Marcotte, and Arun Kumar Ramani
Labs
Machine Learning