Conservation of software science parameters across modularization. - Lawrence Hunter; Jose C. Ingojo (ACM Annual Conference, 1977)

Estimating Human Cognitive Capacities: A Response to Landauer. - Lawrence Hunter (Cogn. Sci., 1988)

Knowledge Acquisition Planning: Results and Prospects. - Lawrence Hunter (ML, 1989)

A Goal-Based Approach to Intelligent Information Retrieval. - Ashwin Ram 001; Lawrence Hunter (ML, 1991)

Artificial Intelligence and Molecular Biology. - Lawrence Hunter (AI Mag., 1991)

Mega-Classification: Discovering Motifs in Massive Datastreams. - Nomi L. Harris; Lawrence Hunter; David J. States (AAAI, 1992)

Efficient Classification of Massive, Unsegmented Datastreams. - Lawrence Hunter; Nomi L. Harris; David J. States (ML, 1992)

The use of explicit goals for knowledge to guide inference and learning. - Ashwin Ram 001; Lawrence Hunter (Appl. Intell., 1992)

Bayesian Classification of Protein Structure. - Lawrence Hunter; David J. States (IEEE Expert, 1992)

Grand Challenge AI Applications. - Hiroaki Kitano; Walther von Hahn; Lawrence Hunter; Ryuichi Oka; Benjamin W. Wah; Toshio Yokoi (IJCAI, 1993)

Finding Relevant Biomolecular Features. - Lawrence Hunter; Teri E. Klein (ISMB, 1993)

Computationally Efficient Cluster Representation in Molecular Sequence Megaclassification. - David J. States; Nomi L. Harris; Lawrence Hunter (ISMB, 1993)

The First International Conference on Intelligent Systems for Molecular Biology. - David B. Searls; Jude W. Shavlik; Lawrence Hunter (AI Mag., 1994)

Introduction. - Jude W. Shavlik; Lawrence Hunter; David B. Searls (Mach. Learn., 1995)

Identifying Chimerism in Proteins Using Hidden Markov Models of Codon Usage. - Lawrence Hunter; Barry Zeeberg (ISMB, 1997)

Predicting Enzyme Function from Sequence: A Systematic Appraisal. - Imran Shah; Lawrence Hunter (ISMB, 1997)

A Model of Cerebellar Saccadic Motor Learning Using Qualitative Reasoning. - Jeffrey L. Krichmar; Giorgio A. Ascoli; Lawrence Hunter; James Leland Olds (IWANN, 1997)

Identification of Divergent Functions in Homologous Proteins by Induction over Conserved Modules. - Imran Shah; Lawrence Hunter (ISMB, 1998)

Comparison of Clustering Metrics and Unsupervised Learning Algorithms on Genome-Wide Gene Expression Level Data. - Sonia M. Leach; Lawrence Hunter; David Landsman (AAAI/IAAI, 1999)

Mining molecular binding terminology from biomedical text. - Thomas C. Rindflesch; Lawrence Hunter; Alan R. Aronson (AMIA, 1999)

Extracting Molecular Binding Relationships from Biomedical Text. - Thomas C. Rindflesch; Jayant V. Rajan; Lawrence Hunter (ANLP, 2000)

GEST: a gene expression search tool based on a novel Bayesian similarity metric. - Lawrence Hunter; Ronald C. Taylor; Sonia M. Leach; Richard Simon (ISMB (Supplement of Bioinformatics), 2001)

Contrast and variability in gene names. - K. Bretonnel Cohen; Andrew Dolbey; George K. Acquaah-Mensah; Lawrence Hunter (ACL Workshop on Natural Language Processing in the Biomedical Domain, 2002)

A bioinformatics tool to select sequences for microarray studies of mouse models of oncogenesis. - Mary E. Edgerton; Ronald C. Taylor; John I. Powell; Lawrence Hunter; Richard Simon; Edison T. Liu (Bioinform., 2002)

Guest Editors' Introduction-Computer Science and Biology: An Unlikely Pair. - Lawrence Hunter; Richard H. Lathrop (IEEE Intell. Syst., 2002)

Preface. - Russ B. Altman; A. Keith Dunker; Lawrence Hunter; Teri E. Klein (Pacific Symposium on Biocomputing, 2003)

Special Paper - Introduction. - Russ B. Altman; A. Keith Dunker; Lawrence Hunter; Teri E. Klein (Pacific Symposium on Biocomputing, 2003)

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 004; Lawrence Hunter (Pacific Symposium on Biocomputing, 2003)

IBM Research and the University of Colorado - TREC 2003 Genomics Track. - Eric W. Brown 001; Andrew Dolbey; Lawrence Hunter (TREC, 2003)

Integrated Term Weighting, Visualization, and User Interface Development for Bioinformation Retrieval. - Min Hong; Anis Karimpour-Fard; Steve Russell; Lawrence Hunter (AIS, 2004)

The Compositional Structure of Gene Ontology Terms. - Philip V. Ogren; K. Bretonnel Cohen; George K. Acquaah-Mensah; Jens Eberlein; Lawrence Hunter (Pacific Symposium on Biocomputing, 2004)

Life and Its Molecules: A Brief Introduction. - Lawrence Hunter (AI Mag., 2004)

Natural Language Processing and Systems Biology. - K. Bretonnel Cohen; Lawrence Hunter (Artificial Intelligence Methods And Tools For Systems Biology, 2004)

Empirical data on corpus design and usage in biomedical natural language processing. - K. Bretonnel Cohen; Philip V. Ogren; Lynne M. Fox; Lawrence Hunter (AMIA, 2005)

Corpus Design for Biomedical Natural Language Processing. - K. Bretonnel Cohen; Lynne M. Fox; Philip V. Ogren; Lawrence Hunter (LBLODMBS@IDMB, 2005)

GO Molecular Function Terms Are Predictive of Subcellular Localization. - Zhiyong Lu; Lawrence Hunter (Pacific Symposium on Biocomputing, 2005)

Implications of Compositionality in the Gene Ontology for Its Curation and Usage . - Philip V. Ogren; K. Bretonnel Cohen; Lawrence Hunter (Pacific Symposium on Biocomputing, 2005)

Concept Recognition and the TREC Genomics Tasks. - J. Gregory Caporaso; William A. Baumgartner Jr.; K. Bretonnel Cohen; Helen L. Johnson 001; Jesse Paquette; Lawrence Hunter (TREC, 2005)

BioCreAtIvE Task1A: entity identification with a stochastic tagger. - Shuhei Kinoshita; K. Bretonnel Cohen; Philip V. Ogren; Lawrence Hunter (BMC Bioinform., 2005)

Refactoring Corpora. - Helen L. Johnson 001; William A. Baumgartner Jr.; Martin Krallinger; K. Bretonnel Cohen; Lawrence Hunter (BioNLP@NAACL-HLT, 2006)

Evaluation of Lexical Methods for Detecting Relationships Between Concepts from Multiple Ontologies. - Helen L. Johnson 001; K. Bretonnel Cohen; William A. Baumgartner Jr.; Zhiyong Lu; Michael Bada; Todd Kester; Hyunmin Kim; Lawrence Hunter (Pacific Symposium on Biocomputing, 2006)

Finding GeneRIFs via Gene Ontology Annotations. - Zhiyong Lu; K. Bretonnel Cohen; Lawrence Hunter (Pacific Symposium on Biocomputing, 2006)

Concept Recognition, Information Retrieval, and Machine Learning in Genomics Question-Answering. - J. Gregory Caporaso; William A. Baumgartner Jr.; Hyunmin Kim; Zhiyong Lu; Helen L. Johnson 001; Olga Medvedeva; Anna Lindemann; Lynne M. Fox; Elizabeth K. White; K. Bretonnel Cohen; Lawrence Hunter (TREC, 2006)

A critical review of PASBio's argument structures for biomedical verbs. - K. Bretonnel Cohen; Lawrence Hunter (BMC Bioinform., 2006)

Mining Discriminative Distance Context of Transcription Factor Binding Sites on ChIP Enriched Regions. - Hyunmin Kim; Katherina J. Kechris; Lawrence Hunter (ISBRA, 2007)

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 (ISMB/ECCB (Supplement of Bioinformatics), 2007)

A Fault Model for Ontology Mapping, Alignment, and Linking Systems. - Helen L. Johnson 001; K. Bretonnel Cohen; Lawrence Hunter (Pacific Symposium on Biocomputing, 2007)

Assessing and Combining Reliability of Protein Interaction Sources. - Sonia M. Leach; Aaron Gabow; Lawrence Hunter; Debra Goldberg (Pacific Symposium on Biocomputing, 2007)

Generif Quality Assurance as Summary Revision. - Zhiyong Lu; K. Bretonnel Cohen; Lawrence Hunter (Pacific Symposium on Biocomputing, 2007)

MutationFinder: a high-performance system for extracting point mutation mentions from text. - J. Gregory Caporaso; William A. Baumgartner Jr.; David A. Randolph; K. Bretonnel Cohen; Lawrence Hunter (Bioinform., 2007)

Rapid Pattern Development for Concept Recognition Systems: Application to Point mutations. - J. Gregory Caporaso; William A. Baumgartner Jr.; David A. Randolph; K. Bretonnel Cohen; Lawrence Hunter (J. Bioinform. Comput. Biol., 2007)

Enrichment of OBO ontologies. - Michael Bada; Lawrence Hunter (J. Biomed. Informatics, 2007)

The International Society for Computational Biology 10th Anniversary. - Lawrence Hunter; Russ B. Altman; Philip E. Bourne (PLoS Comput. Biol., 2007)

Software Testing and the Naturally Occurring Data Assumption in Natural Language Processing. - K. Bretonnel Cohen; William A. Baumgartner Jr.; Lawrence Hunter (SETQALNLP, 2008)

Mining Protein-Protein Interactions from GeneRIFs with OpenDMAP. - Andrew D. Fox; William A. Baumgartner Jr.; Helen L. Johnson 001; Lawrence E. Hunter; Donna K. Slonim (BioLINK@ISMB/ECCB, 2008)

A Call for an Abductive Reasoning Feature in OWL-Reasoning Tools toward Ontology Quality Control. - Michael Bada; Chris Mungall; Lawrence Hunter (OWLED, 2008)

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 (Pacific Symposium on Biocomputing, 2008)

Identification of OBO nonalignments and its implications for OBO enrichment. - Michael Bada; Lawrence Hunter (Bioinform., 2008)

Semantic role labeling for protein transport predicates. - Steven Bethard; Zhiyong Lu; James H. Martin; Lawrence Hunter (BMC Bioinform., 2008)

Improving protein function prediction methods with integrated literature data. - Aaron Gabow; Sonia M. Leach; William A. Baumgartner Jr.; Lawrence Hunter; Debra Goldberg (BMC Bioinform., 2008)

OpenDMAP: An open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression. - Lawrence Hunter; Zhiyong Lu; James Firby; William A. Baumgartner Jr.; Helen L. Johnson 001; Philip V. Ogren; K. Bretonnel Cohen (BMC Bioinform., 2008)

Predicting protein linkages in bacteria: Which method is best depends on task. - Anis Karimpour-Fard; Sonia M. Leach; Ryan T. Gill; Lawrence Hunter (BMC Bioinform., 2008)

Getting Started in Text Mining. - K. Bretonnel Cohen; Lawrence Hunter (PLoS Comput. Biol., 2008)

High-precision biological event extraction with a concept recognizer. - K. Bretonnel Cohen; Karin Verspoor; Helen L. Johnson 001; Christophe Roeder; Philip V. Ogren; William A. Baumgartner Jr.; Elizabeth K. White; Lawrence Hunter (BioNLP@HLT-NAACL (Shared Task), 2009)

How interactive visualization can assist investigative analysis: Views and perspectives from domain experts. - John T. Stasko; Sarah Cohen; Lawrence Hunter; Joe Parry (IEEE VAST, 2009)

U-Compare: share and compare text mining tools with UIMA. - Yoshinobu Kano; William A. Baumgartner Jr.; Luke McCrohon; Sophia Ananiadou; K. Bretonnel Cohen; Lawrence Hunter; Jun'ichi Tsujii (Bioinform., 2009)

Ontology quality assurance through analysis of term transformations. - Karin Verspoor; Daniel Dvorkin; K. Bretonnel Cohen; Lawrence Hunter (Bioinform., 2009)

Leveraging existing biological knowledge in the identification of candidate genes for facial dysmorphology. - Hannah J. Tipney; Sonia M. Leach; Weiguo Feng; Richard A. Spritz; Trevor Williams; Lawrence Hunter (BMC Bioinform., 2009)

The textual characteristics of traditional and Open Access scientific journals are similar. - Karin Verspoor; K. Bretonnel Cohen; Lawrence Hunter (BMC Bioinform., 2009)

New JBI emphasis on translational bioinformatics. - Edward H. Shortliffe; Andrea Califano; Lawrence Hunter (J. Biomed. Informatics, 2009)

Biomedical Discovery Acceleration, with Applications to Craniofacial Development. - Sonia M. Leach; Hannah J. Tipney; Weiguo Feng; William A. Baumgartner Jr.; Priyanka Kasliwal; Ronald P. Schuyler; Trevor Williams; Richard A. Spritz; Lawrence Hunter (PLoS Comput. Biol., 2009)

An Overview of the CRAFT Concept Annotation Guidelines. - Michael Bada; Miriam Eckert; Martha Palmer; Lawrence Hunter (Linguistic Annotation Workshop, 2010)

Visualization and Language Processing for Supporting Analysis across the Biomedical Literature. - Carsten Görg; Hannah J. Tipney; Karin Verspoor; William A. Baumgartner Jr.; K. Bretonnel Cohen; John T. Stasko; Lawrence Hunter (KES (4), 2010)

Test Suite Design for Biomedical Ontology Concept Recognition Systems. - K. Bretonnel Cohen; Christophe Roeder; William A. Baumgartner Jr.; Lawrence Hunter; Karin Verspoor (LREC, 2010)

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 (Pacific Symposium on Biocomputing, 2010)

Leveraging Gene Ontology Annotations to Improve a Memory-Based Language Understanding System. - Kevin M. Livingston; Helen L. Johnson 001; Karin Verspoor; Lawrence Hunter (ICSC, 2010)

A UIMA wrapper for the NCBO annotator. - Christophe Roeder; Clément Jonquet; Nigam H. Shah; William A. Baumgartner Jr.; Karin Verspoor; Lawrence Hunter (Bioinform., 2010)

The structural and content aspects of abstracts versus bodies of full text journal articles are different. - K. Bretonnel Cohen; Helen L. Johnson 001; Karin Verspoor; Christophe Roeder; Lawrence Hunter (BMC Bioinform., 2010)

Current methodologies for translational bioinformatics. - Yves A. Lussier; Atul J. Butte; Lawrence Hunter (J. Biomed. Informatics, 2010)

Exploring Species-Based Strategies for Gene Normalization. - Karin Verspoor; Christophe Roeder; Helen L. Johnson 001; K. Bretonnel Cohen; William A. Baumgartner Jr.; Lawrence Hunter (IEEE ACM Trans. Comput. Biol. Bioinform., 2010)

A scaleable automated quality assurance technique for semantic representations and proposition banks. - K. Bretonnel Cohen; Lawrence Hunter; Martha Palmer (Linguistic Annotation Workshop, 2011)

Fast and simple semantic class assignment for biomedical text. - K. Bretonnel Cohen; Tom Christiansen; William A. Baumgartner Jr.; Karin Verspoor; Lawrence Hunter (BioNLP@ACL, 2011)

Hypothesis and Evidence Extraction from Full-Text Scientific Journal Articles. - Elizabeth K. White; K. Bretonnel Cohen; Lawrence Hunter (BioNLP@ACL, 2011)

MetaMap is a Superior Baseline to a Standard Document Retrieval Engine for the Task of Finding Patient Cohorts in Clinical Free Text. - K. Bretonnel Cohen; Tom Christiansen; Lawrence E. Hunter (TREC, 2011)

U-Compare bio-event meta-service: compatible BioNLP event extraction services. - Yoshinobu Kano; Jari Björne; Filip Ginter; Tapio Salakoski; Ekaterina Buyko; Udo Hahn; K. Bretonnel Cohen; Karin Verspoor; Christophe Roeder; Lawrence E. Hunter; Halil Kilicoglu; Sabine Bergler; et al. (BMC Bioinform., 2011)

High-Precision Biological Event Extraction: Effects of System and of Data. - K. Bretonnel Cohen; Karin Verspoor; Helen L. Johnson 001; Christophe Roeder; Philip V. Ogren; William A. Baumgartner Jr.; Elizabeth K. White; Hannah J. Tipney; Lawrence Hunter (Comput. Intell., 2011)

U-Compare: A modular NLP workflow construction and evaluation system. - Yoshinobu Kano; Makoto Miwa; K. Bretonnel Cohen; Lawrence Hunter; Sophia Ananiadou; Jun'ichi Tsujii (IBM J. Res. Dev., 2011)

Desiderata for ontologies to be used in semantic annotation of biomedical documents. - Michael Bada; Lawrence Hunter (J. Biomed. Informatics, 2011)

Invited Talks. - Timothy W. Clark; William W. Cohen; Lawrence Hunter; Chris J. Lintott; Jude W. Shavlik (AAAI Fall Symposium: Discovery Informatics, 2012)

Assessment of Software Testing and Quality Assurance in Natural Language Processing Applications and a Linguistically Inspired Approach to Improving It. - K. Bretonnel Cohen; Lawrence E. Hunter; Martha Palmer (EternalS@ECAI, 2012)

Concept annotation in the CRAFT corpus. - Michael Bada; Miriam Eckert; Donald Evans; Kristin Garcia; Krista Shipley; Dmitry Sitnikov; William A. Baumgartner Jr.; K. Bretonnel Cohen; Karin Verspoor; Judith A. Blake; Lawrence E. Hunter (BMC Bioinform., 2012)

A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools. - Karin Verspoor; Kevin Bretonnel Cohen; Arrick Lanfranchi; Colin Warner; Helen L. Johnson 001; Christophe Roeder; Jinho D. Choi; Christopher S. Funk; Yuriy Malenkiy; Miriam Eckert; Nianwen Xue; William A. Baumgartner Jr.; et al. (BMC Bioinform., 2012)

Biological Data Visualization (Dagstuhl Seminar 12372). - Carsten Görg; Lawrence Hunter; Jessie Kennedy; Seán I. O'Donoghue; Jarke J. van Wijk (Dagstuhl Reports, 2012)

AMIA Board white paper: definition of biomedical informatics and specification of core competencies for graduate education in the discipline. - Casimir A. Kulikowski; Edward H. Shortliffe; Leanne M. Currie; Peter L. Elkin; Lawrence E. Hunter; Todd R. Johnson; Ira J. Kalet; Leslie A. Lenert; Mark A. Musen; Judy G. Ozbolt; Jack W. Smith; Peter Tarczy-Hornoch; et al. (J. Am. Medical Informatics Assoc., 2012)

Computational Challenges of Mass Phenotyping. - Lawrence Hunter (Pacific Symposium on Biocomputing, 2013)

UColorado_SOM: Extraction of Drug-Drug Interactions from Biomedical Text using Knowledge-rich and Knowledge-poor Features. - Negacy D. Hailu; Lawrence E. Hunter; K. Bretonnel Cohen (SemEval@NAACL-HLT, 2013)

Representing annotation compositionality and provenance for the Semantic Web. - Kevin M. Livingston; Michael Bada; Lawrence E. Hunter; Karin Verspoor (J. Biomed. Semant., 2013)

Chapter 16: Text Mining for Translational Bioinformatics. - K. Bretonnel Cohen; Lawrence E. Hunter (PLoS Comput. Biol., 2013)

Rocky Mountain Conference on Bioinformatics Celebrates 10 Years. - Lawrence E. Hunter (PLoS Comput. Biol., 2013)

Ontology Translation: A Case Study on Translating the Gene Ontology from English to German. - Negacy D. Hailu; K. Bretonnel Cohen; Lawrence E. Hunter (NLDB, 2014)

Combining Heterogenous Data for Prediction of Disease Related and Pharmacogenes. - Christopher S. Funk; Lawrence E. Hunter; K. Bretonnel Cohen (Pacific Symposium on Biocomputing, 2014)

Building the Next Generation of Quantitative Biologists. - Kristine A. Pattin; Anna C. Greene; Russ B. Altman; Lawrence E. Hunter; David A. Ross; James A. Foster; Jason H. Moore (Pacific Symposium on Biocomputing, 2014)

Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters. - Christopher S. Funk; William A. Baumgartner Jr.; Benjamin Garcia; Christophe Roeder; Michael Bada; K. Bretonnel Cohen; Lawrence E. Hunter; Karin Verspoor (BMC Bioinform., 2014)

Ontologies in Biological Data Visualization. - Sheelagh Carpendale; Min Chen 001; Daniel Evanko; Nils Gehlenborg; Carsten Görg; Lawrence Hunter; Francis Rowland; Margaret-Anne D. Storey; Hendrik Strobelt (IEEE Computer Graphics and Applications, 2014)

A Twentieth Anniversary Tribute to PSB. - Darla Hewett; Michelle Whirl Carrillo; Lawrence E. Hunter; Russ B. Altman; Teri E. Klein (Pacific Symposium on Biocomputing, 2015)

PEAX: Interactive Visual Analysis and Exploration of Complex Clinical Phenotype and Gene Expression Association. - Michael A. Hinterberg; David P. Kao; Michael R. Bristow; Lawrence E. Hunter; J. David Port; Carsten Görg (Pacific Symposium on Biocomputing, 2015)

Training the Next Generation of Quantitative Biologists in the Era of Big Data. - Kristine A. Pattin; Anna C. Greene; Russ B. Altman; Kevin Bretonnel Cohen; Elizabeth Wethington; Carsten Görg; Lawrence E. Hunter; Spencer V. Muse; Predrag Radivojac; Jason H. Moore (Pacific Symposium on Biocomputing, 2015)

Reports of the AAAI 2014 Conference Workshops. - Stefano V. Albrecht; André da Motta Salles Barreto; Darius Braziunas; David L. Buckeridge; Heriberto Cuayáhuitl; Nina Dethlefs; Markus Endres; Amir-massoud Farahmand; Mark Fox; Lutz Frommberger; Sam Ganzfried; Yolanda Gil; et al. (AI Mag., 2015)

KaBOB: ontology-based semantic integration of biomedical databases. - Kevin M. Livingston; Michael Bada; William A. Baumgartner Jr.; Lawrence E. Hunter (BMC Bioinform., 2015)

Visual analysis of biological data-knowledge networks. - Corinna Vehlow; David P. Kao; Michael R. Bristow; Lawrence E. Hunter; Daniel Weiskopf; Carsten Görg (BMC Bioinform., 2015)

Gold-Standard Ontology-Based Annotation of Concepts in Biomedical Text in the CRAFT Corpus: Updates and Extensions. - Michael Bada; Nicole A. Vasilevsky; Melissa A. Haendel; Lawrence Hunter (ICBO/BioCreative, 2016)

Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition. - Christopher S. Funk; K. Bretonnel Cohen; Lawrence E. Hunter; Karin M. Verspoor (J. Biomed. Semant., 2016)

Reproducibility in Biomedical Natural Language Processing. - Kevin Bretonnel Cohen; Aurélie Névéol; Jingbo Xia; Negacy D. Hailu; Cyril Grouin; Lawrence E. Hunter; Pierre Zweigenbaum (AMIA, 2017)

A semantic knowledge-base approach to drug-drug interaction discovery. - Ignacio Tripodi; Kevin Bretonnel Cohen; Lawrence E. Hunter (BIBM, 2017)

Translational Morphosyntax: Distribution of Negation in Clinical Records and Biomedical Journal Articles. - K. Bretonnel Cohen; Foster R. Goss; Pierre Zweigenbaum; Lawrence E. Hunter (MedInfo, 2017)

Semantic Relations in Compound Nouns: Perspectives from Inter-Annotator Agreement. - Prabha Yadav; Elisabetta Jezek; Pierrette Bouillon; Tiffany J. Callahan; Michael Bada; Lawrence E. Hunter; K. Bretonnel Cohen (MedInfo, 2017)

No-Boundary Thinking in Bioinformatics. - Jason H. Moore; Steven F. Jennings; Casey S. Greene; Lawrence E. Hunter; Andy D. Perkins; ClarLynda R. Williams-DeVane; Donald C. Wunsch; Zhongming Zhao; Xiuzhen Huang (PSB, 2017)

Gold-standard ontology-based anatomical annotation in the CRAFT Corpus. - Michael Bada; Nicole A. Vasilevsky; William A. Baumgartner Jr.; Melissa A. Haendel; Lawrence E. Hunter (Database J. Biol. Databases Curation, 2017)

Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles. - K. Bretonnel Cohen; Arrick Lanfranchi; Miji Joo-young Choi; Michael Bada; William A. Baumgartner Jr.; Natalya Panteleyeva; Karin Verspoor; Martha Palmer; Lawrence E. Hunter (BMC Bioinform., 2017)

Knowledge-based biomedical Data Science. - Lawrence E. Hunter (Data Sci., 2017)

Three Dimensions of Reproducibility in Natural Language Processing. - K. Bretonnel Cohen; Jingbo Xia; Pierre Zweigenbaum; Tiffany Callahan; Orin Hargraves; Foster R. Goss; Nancy Ide; Aurélie Névéol; Cyril Grouin; Lawrence E. Hunter (LREC, 2018)

Improving precision in concept normalization. - Mayla Boguslav; K. Bretonnel Cohen; William A. Baumgartner Jr.; Lawrence E. Hunter (PSB, 2018)

OWL-NETS: Transforming OWL representations for improved network inference. - Tiffany J. Callahan; William A. Baumgartner Jr.; Michael Bada; Adrianne L. Stefanski; Ignacio Tripodi; Elizabeth K. White; Lawrence E. Hunter (PSB, 2018)

CRAFT Shared Tasks 2019 Overview - Integrated Structure, Semantics, and Coreference. - William A. Baumgartner Jr.; Michael Bada; Sampo Pyysalo; Manuel R. Ciosici; Negacy D. Hailu; Harrison Pielke-Lombardo; Michael Regan; Lawrence Hunter (BioNLP-OST@EMNLP-IJNCLP, 2019)

P-Hacking Lexical Richness Through Definitions of "Type" and "Token". - K. Bretonnel Cohen; Lawrence E. Hunter; Peter S. Pressman (MedInfo, 2019)

Knowledge-based Biomedical Data Science 2019. - Tiffany J. Callahan; Harrison Pielke-Lombardo; Ignacio J. Tripodi; Lawrence E. Hunter (CoRR, 2019)

Semantic integration of clinical laboratory tests from electronic health records for deep phenotyping and biomarker discovery. - Xingmin Aaron Zhang; Amy Yates; Nicole A. Vasilevsky; Jean-Philippe F. Gourdine; Tiffany J. Callahan; Leigh C. Carmody; Daniel Danis; Marcin P. Joachimiak; Vida Ravanmehr; Emily R. Pfaff; James Champion; Kimberly Robasky; et al. (npj Digit. Medicine, 2019)

PheKnowLator. - TJ Callahan; William A. Baumgartner Jr.; Ignacio J. Tripodi; Adrianne L. Stefanski; Jordan M. Wyrwa; Lawrence Hunter (Zenodo, 2019)

Biocomputing 2021: Proceedings of the Pacific Symposium, Kohala Coast, Hawaii, USA, January 3-7, 2021 - Russ B. Altman; A. Keith Dunker; Lawrence Hunter; Marylyn D. Ritchie; Tiffany Murray; Teri E. Klein (PSB, 2020)

Hypernetwork Science: From Multidimensional Networks to Computational Topology. - Cliff A. Joslyn; Sinan Aksoy; Tiffany J. Callahan; Lawrence E. Hunter; Brett A. Jefferson; Brenda Praggastis; Emilie A. H. Purvine; Ignacio J. Tripodi (CoRR, 2020)

OMOP2OBO Drug Exposure Ingredient Mappings. - Tiffany J. Callahan; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Drug Exposure Ingredient Mappings. - Tiffany J. Callahan; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Drug Exposure Ingredient Mappings. - Tiffany J. Callahan; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Drug Exposure Ingredient Mappings. - Tiffany J. Callahan; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Drug Exposure Ingredient Mappings. - Tiffany J. Callahan; William A. Baumgartner Jr.; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings - WRONG DATA FILE UPLOADED IGNORE THIS VERSION. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Measurement Mappings. - Tiffany J. Callahan; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Condition Occurrence Mappings. - Tiffany J. Callahan; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Condition Occurrence Mappings. - Tiffany J. Callahan; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Condition Occurrence Mappings. - Tiffany J. Callahan; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Condition Occurrence Mappings. - Tiffany J. Callahan; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Condition Occurrence Mappings. - Tiffany J. Callahan; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Condition Occurrence Mappings. - Tiffany J. Callahan; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

OMOP2OBO Condition Occurrence Mappings. - Tiffany J. Callahan; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2020)

Characterization of Anonymous Physician Perspectives on COVID-19 Using Social Media Data. - Katherine J. Sullivan; Marisha Burden; Angela Keniston; Juan M. Banda; Lawrence E. Hunter (PSB, 2021)

Concept recognition as a machine translation problem. - Mayla Boguslav; Negacy D. Hailu; Michael Bada; William A. Baumgartner Jr.; Lawrence E. Hunter (BMC Bioinform., 2021)

Adapting the Harmonized Data Quality Framework for Ontology Quality Assessment. - Tiffany J. Callahan; William A. Baumgartner Jr.; Nicolas A. Matentzoglu; Nicole A. Vasilevsky; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2021)

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 (AMIA, 2022)

BETA: a comprehensive benchmark for computational drug-target prediction. - Nansu Zong; Ning Li; Andrew Wen; Victoria Ngo; Yue Yu; Ming Huang 006; Shaika Chowdhury; Chao Jiang 002; Sunyang Fu; Richard Weinshilboum; Guoqian Jiang; Lawrence Hunter; et al. (Briefings Bioinform., 2022)

Knowledge-Driven Mechanistic Enrichment of the Preeclampsia Ignorome. - Tiffany J. Callahan; Adrianne L. Stefanski; Jin-Dong Kim; William A. Baumgartner Jr.; Jordan M. Wyrwa; Lawrence E. Hunter (CoRR, 2022)

Ontologizing Health Systems Data at Scale: Making Translational Discovery a Reality. - Tiffany J. Callahan; Adrianne L. Stefanski; Jordan M. Wyrwa; Chenjie Zeng; Anna Ostropolets; Juan M. Banda; William A. Baumgartner Jr.; Richard D. Boyce; Elena Casiraghi; Ben D. Coleman; Janine H. Collins; Sara J. Deakyne Davies; et al. (CoRR, 2022)

Mind the Knowledge Gap: A Survey of Knowledge-enhanced Dialogue Systems. - Sagi Shaier; Lawrence Hunter; Katharina Kann (CoRR, 2022)

Molecular cartooning with knowledge graphs. - Brook E. Santangelo; Lucas A. Gillenwater; Nourah M. Salem; Lawrence E. Hunter (Frontiers Bioinform., 2022)

Adapting the Harmonized Data Quality Framework for Ontology Quality Assessment. - Tiffany J. Callahan; William A. Baumgartner Jr.; Nicolas A. Matentzoglu; Nicole A. Vasilevsky; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2022)

OMOP2OBO Condition Occurrence Mappings. - Tiffany J. Callahan; Jordan M. Wyrwa; Nicole A. Vasilevsky; Tellen D. Bennett; Blake Martin; James A. Feinstein; William A. Baumgartner Jr.; Lawrence E. Hunter; Michael G. Kahn (Zenodo, 2022)

Emerging Challenges in Personalized Medicine: Assessing Demographic Effects on Biomedical Question Answering Systems. - Sagi Shaier; Kevin Bennett; Lawrence Hunter; Katharina Kann (IJCNLP (1), 2023)

Who Are All The Stochastic Parrots Imitating? They Should Tell Us! - Sagi Shaier; Lawrence Hunter; Katharina Kann (IJCNLP (2), 2023)

An Open-Source Knowledge Graph Ecosystem for the Life Sciences. - Tiffany J. Callahan; Ignacio J. Tripodi; Adrianne L. Stefanski; Luca Cappelletti; Sanya Bathla Taneja; Jordan M. Wyrwa; Elena Casiraghi; Nicolas A. Matentzoglu; Justin T. Reese; Jonathan C. Silverstein; Charles Tapley Hoyt; Richard D. Boyce; et al. (CoRR, 2023)

The Future of Fundamental Science Led by Generative Closed-Loop Artificial Intelligence. - Hector Zenil; Jesper Tegnér; Felipe S. Abrahão; Alexander Lavin; Vipin Kumar 001; Jeremy G. Frey; Adrian Weller; Larisa N. Soldatova; Alan R. Bundy; Nicholas R. Jennings; Koichi Takahashi; Lawrence Hunter; et al. (CoRR, 2023)

Emerging Challenges in Personalized Medicine: Assessing Demographic Effects on Biomedical Question Answering Systems. - Sagi Shaier; Kevin Bennett; Lawrence Hunter; Katharina von der Wense (CoRR, 2023)

Who Are All The Stochastic Parrots Imitating? They Should Tell Us! - Sagi Shaier; Lawrence E. Hunter; Katharina von der Wense (CoRR, 2023)

Creating an ignorance-base: Exploring known unknowns in the scientific literature. - Mayla R. Boguslav; Nourah M. Salem; Elizabeth K. White; Katherine J. Sullivan; Michael Bada; Teri L. Hernandez; Sonia M. Leach; Lawrence E. Hunter (J. Biomed. Informatics, 2023)

Ontologizing health systems data at scale: making translational discovery a reality. - Tiffany J. Callahan; Adrianne L. Stefanski; Jordan M. Wyrwa; Chenjie Zeng; Anna Ostropolets; Juan M. Banda; William A. Baumgartner Jr.; Richard D. Boyce; Elena Casiraghi; Ben D. Coleman; Janine H. Collins; Sara J. Deakyne Davies; et al. (npj Digit. Medicine, 2023)

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 (ACL (Findings), 2024)

Comparing Template-based and Template-free Language Model Probing. - Sagi Shaier; Kevin Bennett; Lawrence Hunter; Katharina von der Wense (EACL (1), 2024)

Desiderata For The Context Use Of Question Answering Systems. - Sagi Shaier; Lawrence Hunter; Katharina von der Wense (EACL (1), 2024)

Lost in the Middle, and In-Between: Enhancing Language Models' Ability to Reason Over Long Contexts in Multi-Hop QA. - George Arthur Baker; Ankush Raut; Sagi Shaier; Lawrence E. Hunter; Katharina von der Wense (CoRR, 2024)

RecSOI: recommending research directions using statements of ignorance. - Adrien Bibal; Nourah M. Salem; Rémi Cardon; Elizabeth K. White; Daniel E. Acuna; Robin Burke; Lawrence E. Hunter (J. Biomed. Semant., 2024)

MALAMUTE: A Multilingual, Highly-granular, Template-free, Education-based Probing Dataset. - Sagi Shaier; George Arthur Baker; Chiranthan Sridhar; Lawrence Hunter; Katharina von der Wense (ACL (Findings), 2025)

More Experts Than Galaxies: Conditionally-Overlapping Experts with Biologically-Inspired Fixed Routing. - Sagi Shaier; Francisco Pereira 001; Katharina von der Wense; Lawrence Hunter; Matt Jones 002 (ICLR, 2025)