Lawrence E. Hunter

54 papers B 1C 1Misc 10Journal 34Unranked 8

Year	Rank	Type	Title / Venue / Authors
2025	J	`jnl`	GRACKLE: an interpretable matrix factorization approach for biomedical representation learning. Bioinform. Lucas A. Gillenwater, Lawrence E. Hunter, James C. Costello
2024	J	`jnl`	Comparing Template-based and Template-free Language Model Probing. CoRR Sagi Shaier, Kevin Bennett, Lawrence E. Hunter, Katharina von der Wense
2024	J	`jnl`	Desiderata for the Context Use of Question Answering Systems. CoRR Sagi Shaier, Lawrence E. Hunter, Katharina von der Wense
2024	J	`jnl`	It Is Not About What You Say, It Is About How You Say It: A Surprisingly Simple Approach for Improving Reading Comprehension. CoRR Sagi Shaier, Lawrence E. Hunter, Katharina von der Wense
2024	J	`jnl`	Lost in the Middle, and In-Between: Enhancing Language Models' Ability to Reason Over Long Contexts in Multi-Hop QA. CoRR George Arthur Baker, Ankush Raut, Sagi Shaier, Lawrence E. Hunter, Katharina von der Wense
2024	J	`jnl`	MALAMUTE: A Multilingual, Highly-granular, Template-free, Education-based Probing Dataset. CoRR Sagi Shaier, George Arthur Baker, Chiranthan Sridhar, Lawrence E. Hunter, Katharina von der Wense
2024	J	`jnl`	More Experts Than Galaxies: Conditionally-overlapping Experts With Biologically-Inspired Fixed Routing. CoRR Sagi Shaier, Francisco Pereira, Katharina von der Wense, Lawrence E. Hunter, Matt Jones
2024	J	`jnl`	RecSOI: recommending research directions using statements of ignorance. J. Biomed. Semant. Adrien Bibal, Nourah M. Salem, Rémi Cardon, Elizabeth K. White, Daniel E. Acuna, Robin Burke, Lawrence E. Hunter
2023	J	`jnl`	An Open-Source Knowledge Graph Ecosystem for the Life Sciences. CoRR 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, Scott A. Malec, Deepak R. Unni, Marcin P. Joachimiak, Peter N. Robinson, Christopher J. Mungall, Emanuele Cavalleri, Tommaso Fontana, Giorgio Valentini, Marco Mesiti, Lucas A. Gillenwater, Brook E. Santangelo, Nicole A. Vasilevsky, Robert Hoehndorf, Tellen D. Bennett, Patrick B. Ryan, George Hripcsak, Michael G. Kahn, Michael Bada, William A. Baumgartner Jr., Lawrence E. Hunter
2023	J	`jnl`	Creating an ignorance-base: Exploring known unknowns in the scientific literature. J. Biomed. Informatics Mayla R. Boguslav, Nourah M. Salem, Elizabeth K. White, Katherine J. Sullivan, Michael Bada, Teri L. Hernandez, Sonia M. Leach, Lawrence E. Hunter
2023	J	`jnl`	Ontologizing health systems data at scale: making translational discovery a reality. npj Digit. Medicine 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, James A. Feinstein, Asiyah Y. Lin, Blake Martin, Nicolas A. Matentzoglu, Daniella Meeker, Justin T. Reese, Jessica Sinclair, Sanya Bathla Taneja, Katy E. Trinkley, Nicole A. Vasilevsky, Andrew E. Williams, Xingmin Aaron Zhang, Joshua C. Denny, Patrick B. Ryan, George Hripcsak, Tellen D. Bennett, Melissa A. Haendel, Peter N. Robinson, Lawrence E. Hunter, Michael G. Kahn
2023	J	`jnl`	Who Are All The Stochastic Parrots Imitating? They Should Tell Us! CoRR Sagi Shaier, Lawrence E. Hunter, Katharina von der Wense
2022	J	`jnl`	Knowledge-Driven Mechanistic Enrichment of the Preeclampsia Ignorome. CoRR Tiffany J. Callahan, Adrianne L. Stefanski, Jin-Dong Kim, William A. Baumgartner Jr., Jordan M. Wyrwa, Lawrence E. Hunter
2022	J	`jnl`	Molecular cartooning with knowledge graphs. Frontiers Bioinform. Brook E. Santangelo, Lucas A. Gillenwater, Nourah M. Salem, Lawrence E. Hunter
2022	J	`jnl`	Ontologizing Health Systems Data at Scale: Making Translational Discovery a Reality. CoRR 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, James A. Feinstein, Melissa A. Haendel, Asiyah Y. Lin, Blake Martin, Nicolas Matentzoglu, Daniella Meeker, Justin T. Reese, Jessica Sinclair, Sanya Bathla Taneja, Katy E. Trinkley, Nicole A. Vasilevsky, Andrew E. Williams, Xingman A. Zhang, Peter N. Robinson, Patrick B. Ryan, George Hripcsak, Tellen D. Bennett, Lawrence E. Hunter, Michael G. Kahn
2021	Misc	`conf`	Characterization of Anonymous Physician Perspectives on COVID-19 Using Social Media Data. PSB Katherine J. Sullivan, Marisha Burden, Angela Keniston, Juan M. Banda, Lawrence E. Hunter
2021	J	`jnl`	Concept recognition as a machine translation problem. BMC Bioinform. Mayla Boguslav, Negacy D. Hailu, Michael Bada, William A. Baumgartner Jr., Lawrence E. Hunter
2020	J	`jnl`	Hypernetwork Science: From Multidimensional Networks to Computational Topology. CoRR Cliff A. Joslyn, Sinan G. Aksoy, Tiffany J. Callahan, Lawrence E. Hunter, Brett A. Jefferson, Brenda Praggastis, Emilie A. H. Purvine, Ignacio J. Tripodi
2019	J	`jnl`	Knowledge-based Biomedical Data Science 2019. CoRR Tiffany J. Callahan, Harrison Pielke-Lombardo, Ignacio J. Tripodi, Lawrence E. Hunter
2019	—	`conf`	P-Hacking Lexical Richness Through Definitions of "Type" and "Token". MedInfo K. Bretonnel Cohen, Lawrence E. Hunter, Peter S. Pressman
2019	J	`jnl`	Semantic integration of clinical laboratory tests from electronic health records for deep phenotyping and biomarker discovery. npj Digit. Medicine 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, Hao Xu, Karamarie Fecho, Nephi A. Walton, Richard L. Zhu, Justin Ramsdill, Christopher J. Mungall, Sebastian Köhler, Melissa A. Haendel, Clement J. McDonald, Daniel J. Vreeman, David B. Peden, Tellen D. Bennett, James A. Feinstein, Blake Martin, Adrianne L. Stefanski, Lawrence E. Hunter, Christopher G. Chute, Peter N. Robinson
2018	Misc	`conf`	Improving precision in concept normalization. PSB Mayla Boguslav, K. Bretonnel Cohen, William A. Baumgartner Jr., Lawrence E. Hunter
2018	Misc	`conf`	OWL-NETS: Transforming OWL representations for improved network inference. PSB Tiffany J. Callahan, William A. Baumgartner Jr., Michael Bada, Adrianne L. Stefanski, Ignacio Tripodi, Elizabeth K. White, Lawrence E. Hunter
2018	B	`conf`	Three Dimensions of Reproducibility in Natural Language Processing. LREC K. Bretonnel Cohen, Jingbo Xia, Pierre Zweigenbaum, Tiffany Callahan, Orin Hargraves, Foster R. Goss, Nancy Ide, Aurélie Névéol, Cyril Grouin, Lawrence E. Hunter
2017	—	`conf`	A semantic knowledge-base approach to drug-drug interaction discovery. BIBM Ignacio Tripodi, Kevin Bretonnel Cohen, Lawrence E. Hunter
2017	J	`jnl`	Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles. BMC Bioinform. K. Bretonnel Cohen, Arrick Lanfranchi, Miji Joo-young Choi, Michael Bada, William A. Baumgartner Jr., Natalya Panteleyeva, Karin Verspoor, Martha Palmer, Lawrence E. Hunter
2017	J	`jnl`	Gold-standard ontology-based anatomical annotation in the CRAFT Corpus. Database J. Biol. Databases Curation Michael Bada, Nicole A. Vasilevsky, William A. Baumgartner Jr., Melissa A. Haendel, Lawrence E. Hunter
2017	J	`jnl`	Knowledge-based biomedical Data Science. Data Sci. Lawrence E. Hunter
2017	Misc	`conf`	No-Boundary Thinking in Bioinformatics. PSB 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
2017	Misc	`conf`	Reproducibility in Biomedical Natural Language Processing. AMIA Kevin Bretonnel Cohen, Aurélie Névéol, Jingbo Xia, Negacy D. Hailu, Cyril Grouin, Lawrence E. Hunter, Pierre Zweigenbaum
2017	—	`conf`	Semantic Relations in Compound Nouns: Perspectives from Inter-Annotator Agreement. MedInfo Prabha Yadav, Elisabetta Jezek, Pierrette Bouillon, Tiffany J. Callahan, Michael Bada, Lawrence E. Hunter, K. Bretonnel Cohen
2017	—	`conf`	Translational Morphosyntax: Distribution of Negation in Clinical Records and Biomedical Journal Articles. MedInfo K. Bretonnel Cohen, Foster R. Goss, Pierre Zweigenbaum, Lawrence E. Hunter
2016	J	`jnl`	Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition. J. Biomed. Semant. Christopher S. Funk, K. Bretonnel Cohen, Lawrence E. Hunter, Karin M. Verspoor
2015	Misc	`conf`	A Twentieth Anniversary Tribute to PSB. Pacific Symposium on Biocomputing Darla Hewett, Michelle Whirl Carrillo, Lawrence E. Hunter, Russ B. Altman, Teri E. Klein
2015	J	`jnl`	KaBOB: ontology-based semantic integration of biomedical databases. BMC Bioinform. Kevin M. Livingston, Michael Bada, William A. Baumgartner Jr., Lawrence E. Hunter
2015	Misc	`conf`	PEAX: Interactive Visual Analysis and Exploration of Complex Clinical Phenotype and Gene Expression Association. Pacific Symposium on Biocomputing Michael A. Hinterberg, David P. Kao, Michael R. Bristow, Lawrence E. Hunter, J. David Port, Carsten Görg
2015	J	`jnl`	Reports of the AAAI 2014 Conference Workshops. AI Mag. 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, Sébastien Guillet, Lawrence E. Hunter, Arnav Jhala, Kristian Kersting, George Dimitri Konidaris, Freddy Lécué, Sheila A. McIlraith, Sriraam Natarajan, Zeinab Noorian, David Poole, Rémi Ronfard, Alessandro Saffiotti, Arash Shaban-Nejad, Biplav Srivastava, Gerald Tesauro, Rosario Uceda-Sosa, Guy Van den Broeck, Martijn van Otterlo, Byron C. Wallace, Paul Weng, Jenna Wiens, Jie Zhang
2015	Misc	`conf`	Training the Next Generation of Quantitative Biologists in the Era of Big Data. Pacific Symposium on Biocomputing 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
2015	J	`jnl`	Visual analysis of biological data-knowledge networks. BMC Bioinform. Corinna Vehlow, David P. Kao, Michael R. Bristow, Lawrence E. Hunter, Daniel Weiskopf, Carsten Görg
2014	Misc	`conf`	Building the Next Generation of Quantitative Biologists. Pacific Symposium on Biocomputing Kristine A. Pattin, Anna C. Greene, Russ B. Altman, Lawrence E. Hunter, David A. Ross, James A. Foster, Jason H. Moore
2014	Misc	`conf`	Combining Heterogenous Data for Prediction of Disease Related and Pharmacogenes. Pacific Symposium on Biocomputing Christopher S. Funk, Lawrence E. Hunter, K. Bretonnel Cohen
2014	J	`jnl`	Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters. BMC Bioinform. Christopher S. Funk, William A. Baumgartner Jr., Benjamin Garcia, Christophe Roeder, Michael Bada, K. Bretonnel Cohen, Lawrence E. Hunter, Karin Verspoor
2014	C	`conf`	Ontology Translation: A Case Study on Translating the Gene Ontology from English to German. NLDB Negacy D. Hailu, K. Bretonnel Cohen, Lawrence E. Hunter
2013	J	`jnl`	Chapter 16: Text Mining for Translational Bioinformatics. PLoS Comput. Biol. K. Bretonnel Cohen, Lawrence E. Hunter
2013	J	`jnl`	Representing annotation compositionality and provenance for the Semantic Web. J. Biomed. Semant. Kevin M. Livingston, Michael Bada, Lawrence E. Hunter, Karin Verspoor
2013	J	`jnl`	Rocky Mountain Conference on Bioinformatics Celebrates 10 Years. PLoS Comput. Biol. Lawrence E. Hunter
2013	—	`conf`	UColorado_SOM: Extraction of Drug-Drug Interactions from Biomedical Text using Knowledge-rich and Knowledge-poor Features. SemEval@NAACL-HLT Negacy D. Hailu, Lawrence E. Hunter, K. Bretonnel Cohen
2012	J	`jnl`	A corpus of full-text journal articles is a robust evaluation tool for revealing differences in performance of biomedical natural language processing tools. BMC Bioinform. Karin Verspoor, Kevin Bretonnel Cohen, Arrick Lanfranchi, Colin Warner, Helen L. Johnson, Christophe Roeder, Jinho D. Choi, Christopher S. Funk, Yuriy Malenkiy, Miriam Eckert, Nianwen Xue, William A. Baumgartner Jr., Michael Bada, Martha Palmer, Lawrence E. Hunter
2012	J	`jnl`	AMIA Board white paper: definition of biomedical informatics and specification of core competencies for graduate education in the discipline. J. Am. Medical Informatics Assoc. 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, Jeffrey J. Williamson
2012	—	`conf`	Assessment of Software Testing and Quality Assurance in Natural Language Processing Applications and a Linguistically Inspired Approach to Improving It. EternalS@ECAI K. Bretonnel Cohen, Lawrence E. Hunter, Martha Palmer
2012	J	`jnl`	Concept annotation in the CRAFT corpus. BMC Bioinform. 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
2011	—	`conf`	MetaMap is a Superior Baseline to a Standard Document Retrieval Engine for the Task of Finding Patient Cohorts in Clinical Free Text. TREC K. Bretonnel Cohen, Tom Christiansen, Lawrence E. Hunter
2011	J	`jnl`	U-Compare bio-event meta-service: compatible BioNLP event extraction services. BMC Bioinform. 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, Sofie Van Landeghem, Thomas Van Parys, Yves Van de Peer, Makoto Miwa, Sophia Ananiadou, Mariana L. Neves, Alberto D. Pascual-Montano, Arzucan Özgür, Dragomir R. Radev, Sebastian Riedel, Rune Sætre, Hong-Woo Chun, Jin-Dong Kim, Sampo Pyysalo, Tomoko Ohta, Jun'ichi Tsujii
2008	—	`conf`	Mining Protein-Protein Interactions from GeneRIFs with OpenDMAP. BioLINK@ISMB/ECCB Andrew D. Fox, William A. Baumgartner Jr., Helen L. Johnson, Lawrence E. Hunter, Donna K. Slonim