Overview of BioNLP 2011 Protein Coreference Shared Task

This paper summarizes the Protein Coreference Resolution task of BioNLP Shared Task 2011. After 7 weeks of system development period, the task received final submissions from 6 teams. Evaluation results show that state-of-the-art performance on the task can find 22.18% of protein coreferences with the precision of 73.26%. Analysis of the submissions shows that several types of anaphoric expressions including definite expressions, which occupies a significant part of the problem, have not yet been solved.

[1]  Jin-Dong Kim,et al.  The GENIA corpus: an annotated research abstract corpus in molecular biology domain , 2002 .

[2]  Mark A. Przybocki,et al.  Linguistic Resources and Evaluation Techniques for Evaluation of Cross-Document Automatic Content Extraction , 2008, LREC.

[3]  Sanda M. Harabagiu,et al.  Unsupervised Event Coreference Resolution with Rich Linguistic Features , 2010, ACL.

[4]  Nancy Chinchor,et al.  Overview of MUC-7 , 1998, MUC.

[5]  Jun'ichi Tsujii,et al.  Syntax Annotation for the GENIA Corpus , 2005, IJCNLP.

[6]  Claire Cardie,et al.  Coreference Resolution with Reconcile , 2010, ACL.

[7]  Sampo Pyysalo,et al.  Overview of BioNLP’09 Shared Task on Event Extraction , 2009, BioNLP@HLT-NAACL.

[8]  Jun'ichi Tsujii,et al.  Corpus annotation for mining biomedical events from literature , 2008, BMC Bioinformatics.

[9]  Vincent Ng,et al.  Supervised Noun Phrase Coreference Research: The First Fifteen Years , 2010, ACL.

[10]  Jun'ichi Tsujii,et al.  Event Extraction with Complex Event Classification Using Rich Features , 2010, J. Bioinform. Comput. Biol..

[11]  Jian Su,et al.  Coreference Resolution in Biomedical Texts: a Machine Learning Approach , 2008, Ontologies and Text Mining for Life Sciences.

[12]  Yu-Hsiang Lin,et al.  Pronominal and Sortal Anaphora Resolution for Biomedical Literature , 2004, ROCLING/IJCLCLP.

[13]  Jin-Dong Kim,et al.  Exploring Domain Differences for the Design of a Pronoun Resolution System for Biomedical Text , 2008, COLING.

[14]  Breck Baldwin,et al.  CogNIAC: high precision coreference with limited knowledge and linguistic resources , 1997 .

[15]  Heeyoung Lee,et al.  A Multi-Pass Sieve for Coreference Resolution , 2010, EMNLP.

[16]  Claire Cardie,et al.  Reconcile: A Coreference Resolution Research Platform , 2010 .