| 2026 | SIGIR | BeLink: Biomedical Entity Linking Meets Generative Re-Ranking. | Darya Shlyk, Stefano Montanelli, Lawrence Hunter |
| 2025 | ACL | MALAMUTE: A Multilingual, Highly-granular, Template-free, Education-based Probing Dataset. | Sagi Shaier, George Arthur Baker, Chiranthan Sridhar, Lawrence Hunter, Katharina von der Wense |
| 2025 | ICLR | More Experts Than Galaxies: Conditionally-Overlapping Experts with Biologically-Inspired Fixed Routing. | Sagi Shaier, Francisco Pereira, Katharina von der Wense, Lawrence Hunter, Matt Jones |
| 2024 | ACL | It Is Not About What You Say, It Is About How You Say It: A Surprisingly Simple Approach for Improving Reading Comprehension. | Sagi Shaier, Lawrence Hunter, Katharina von der Wense |
| 2024 | EACL | Comparing Template-based and Template-free Language Model Probing. | Sagi Shaier, Kevin Bennett, Lawrence Hunter, Katharina von der Wense |
| 2024 | EACL | Desiderata For The Context Use Of Question Answering Systems. | Sagi Shaier, Lawrence Hunter, Katharina von der Wense |
| 2023 | IJCNLP | Emerging Challenges in Personalized Medicine: Assessing Demographic Effects on Biomedical Question Answering Systems. | Sagi Shaier, Kevin Bennett, Lawrence Hunter, Katharina Kann |
| 2023 | IJCNLP | Who Are All The Stochastic Parrots Imitating? They Should Tell Us! | Sagi Shaier, Lawrence Hunter, Katharina Kann |
| 2022 | AMIA | Characterizing Patient Representations for Computational Phenotyping. | Tiffany J. Callahan, Adrianne L. Stefanski, Danielle Ostendorf, Jordan M. Wyrwa, Sara J. Deakyne Davies, George Hripcsak, Lawrence Hunter, Michael G. Kahn |
| 2013 | PSB | Computational Challenges of Mass Phenotyping. | Lawrence Hunter |
| 2010 | KES | Visualization and Language Processing for Supporting Analysis across the Biomedical Literature. | Carsten Grg, Hannah J. Tipney, Karin Verspoor, William A. Baumgartner Jr., K. Bretonnel Cohen, John T. Stasko, Lawrence Hunter |
| 2010 | LREC | Test Suite Design for Biomedical Ontology Concept Recognition Systems. | K. Bretonnel Cohen, Christophe Roeder, William A. Baumgartner Jr., Lawrence Hunter, Karin Verspoor |
| 2010 | PSB | Extraction of Genotype-Phenotype-Drug Relationships from Text: From Entity Recognition to Bioinformatics Application. | Adrien Coulet, Nigam H. Shah, Lawrence Hunter, Chitta Baral, Russ B. Altman |
| 2008 | ACL | Software Testing and the Naturally Occurring Data Assumption in Natural Language Processing. | K. Bretonnel Cohen, William A. Baumgartner Jr., Lawrence Hunter |
| 2008 | PSB | Intrinsic Evaluation of Text Mining Tools May Not Predict Performance on Realistic Tasks. | J. Gregory Caporaso, Nita Deshpande, J. Lynn Fink, Philip E. Bourne, K. Bretonnel Cohen, Lawrence Hunter |
| 2007 | ISMB | Manual curation is not sufficient for annotation of genomic databases. | William A. Baumgartner Jr., K. Bretonnel Cohen, Lynne M. Fox, George K. Acquaah-Mensah, Lawrence Hunter |
| 2007 | PSB | A Fault Model for Ontology Mapping, Alignment, and Linking Systems. | Helen L. Johnson, K. Bretonnel Cohen, Lawrence Hunter |
| 2007 | PSB | Assessing and Combining Reliability of Protein Interaction Sources. | Sonia M. Leach, Aaron Gabow, Lawrence Hunter, Debra Goldberg |
| 2007 | PSB | Generif Quality Assurance as Summary Revision. | Zhiyong Lu, K. Bretonnel Cohen, Lawrence Hunter |
| 2006 | PSB | Evaluation of Lexical Methods for Detecting Relationships Between Concepts from Multiple Ontologies. | Helen L. Johnson, K. Bretonnel Cohen, William A. Baumgartner Jr., Zhiyong Lu, Michael Bada, Todd Kester, Hyunmin Kim, Lawrence Hunter |
| 2006 | PSB | Finding GeneRIFs via Gene Ontology Annotations. | Zhiyong Lu, K. Bretonnel Cohen, Lawrence Hunter |
| 2005 | AMIA | Empirical data on corpus design and usage in biomedical natural language processing. | K. Bretonnel Cohen, Philip V. Ogren, Lynne M. Fox, Lawrence Hunter |
| 2005 | ISMB | Corpus Design for Biomedical Natural Language Processing. | K. Bretonnel Cohen, Lynne M. Fox, Philip V. Ogren, Lawrence Hunter |
| 2005 | PSB | Preface. | Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein |
| 2005 | PSB | GO Molecular Function Terms Are Predictive of Subcellular Localization. | Zhiyong Lu, Lawrence Hunter |
| 2005 | PSB | Implications of Compositionality in the Gene Ontology for Its Curation and Usage . | Philip V. Ogren, K. Bretonnel Cohen, Lawrence Hunter |
| 2004 | PSB | Preface. | Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein |
| 2004 | PSB | The Compositional Structure of Gene Ontology Terms. | Philip V. Ogren, K. Bretonnel Cohen, George K. Acquaah-Mensah, Jens Eberlein, Lawrence Hunter |
| 2003 | PSB | Preface. | Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein |
| 2003 | PSB | Special Paper - Introduction. | Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein |
| 2003 | PSB | Trajectory Clustering: A Non-Parametric Method for Grouping Gene Expression Time Courses with Applications to Mammary Development. | Tzu L. Phang, Margaret C. Neville, Michael Rudolph, Lawrence Hunter |
| 2002 | ACL | Contrast and variability in gene names. | K. Bretonnel Cohen, Andrew Dolbey, George K. Acquaah-Mensah, Lawrence Hunter |
| 2002 | PSB | Preface. | Russ B. Altman, A. Keith Dunker, Lawrence Hunter, Teri E. Klein |
| 2001 | ISMB | GEST: a gene expression search tool based on a novel Bayesian similarity metric. | Lawrence Hunter, Ronald C. Taylor, Sonia M. Leach, Richard Simon |
| 1999 | AAAI | Comparison of Clustering Metrics and Unsupervised Learning Algorithms on Genome-Wide Gene Expression Level Data. | Sonia M. Leach, Lawrence Hunter, David Landsman |
| 1999 | AMIA | Mining molecular binding terminology from biomedical text. | Thomas C. Rindflesch, Lawrence Hunter, Alan R. Aronson |
| 1998 | ISMB | Identification of Divergent Functions in Homologous Proteins by Induction over Conserved Modules. | Imran Shah, Lawrence Hunter |
| 1997 | ISMB | Identifying Chimerism in Proteins Using Hidden Markov Models of Codon Usage. | Lawrence Hunter, Barry Zeeberg |
| 1997 | ISMB | Predicting Enzyme Function from Sequence: A Systematic Appraisal. | Imran Shah, Lawrence Hunter |
| 1997 | IWANN | A Model of Cerebellar Saccadic Motor Learning Using Qualitative Reasoning. | Jeffrey L. Krichmar, Giorgio A. Ascoli, Lawrence Hunter, James Leland Olds |
| 1993 | IJCAI | Grand Challenge AI Applications. | Hiroaki Kitano, Walther von Hahn, Lawrence Hunter, Ryuichi Oka, Benjamin W. Wah, Toshio Yokoi |
| 1993 | ISMB | Finding Relevant Biomolecular Features. | Lawrence Hunter, Teri E. Klein |
| 1993 | ISMB | Computationally Efficient Cluster Representation in Molecular Sequence Megaclassification. | David J. States, Nomi L. Harris, Lawrence Hunter |
| 1992 | AAAI | Mega-Classification: Discovering Motifs in Massive Datastreams. | Nomi L. Harris, Lawrence Hunter, David J. States |
| 1992 | AAAI | Artificial Intelligence and Molecular Biology. | Lawrence Hunter |
| 1992 | ICML | Efficient Classification of Massive, Unsegmented Datastreams. | Lawrence Hunter, Nomi L. Harris, David J. States |
| 1991 | ICML | A Goal-Based Approach to Intelligent Information Retrieval. | Ashwin Ram, Lawrence Hunter |
| 1989 | ICML | Knowledge Acquisition Planning: Results and Prospects. | Lawrence Hunter |