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2010 – 2019
- 2019
[j7]Maxwell Lewis Neal
, Matthias König, David P. Nickerson, Goksel Misirli, Reza Kalbasi, Andreas Dräger, Koray Atalag, Vijayalakshmi Chelliah, Michael T. Cooling, Daniel L. Cook, Sharon M. Crook, Miguel de Alba, Samuel H. Friedman, Alan Garny, John H. Gennari, Padraig Gleeson, Martin Golebiewski, Michael Hucka, Nick S. Juty, Chris J. Myers, Brett G. Olivier, Herbert M. Sauro, Martin Scharm, Jacky L. Snoep, Vasundra Touré, Anil Wipat, Olaf Wolkenhauer, Dagmar Waltemath:
Harmonizing semantic annotations for computational models in biology. Briefings Bioinform. 20(2): 540-550 (2019)- [j6]Maxwell Lewis Neal, Christopher T. Thompson, Karam G. Kim, Ryan C. James, Daniel L. Cook, Brian E. Carlson, John H. Gennari:
SemGen: a tool for semantics-based annotation and composition of biosimulation models. Bioinform. 35(9): 1600-1602 (2019) - [c14]Daniel L. Cook, John H. Gennari, Maxwell Lewis Neal:
The Ontology of Physics for Biology - A Companion to Basic Formal Ontology. ICBO 2019: 1-9 - 2017
- [c13]Daniel L. Cook, John H. Gennari, Maxwell Lewis Neal:
Extending the Ontology of Physics for Biology with Thermodynamics. ICBO 2017 - 2016
- [c12]Maxwell Lewis Neal, John H. Gennari, Daniel L. Cook:
Qualitative Causal Analyses of Biosimulation Models. ICBO/BioCreative 2016 - 2014
- [j5]Maxwell Lewis Neal, Michael T. Cooling, Lucian P. Smith, Christopher T. Thompson, Herbert M. Sauro, Brian E. Carlson, Daniel L. Cook, John H. Gennari:
A Reappraisal of How to Build Modular, Reusable Models of Biological Systems. PLoS Comput. Biol. 10(10) (2014) - 2013
- [j4]Daniel L. Cook, Maxwell Lewis Neal, Fred L. Bookstein, John H. Gennari:
Ontology of physics for biology: representing physical dependencies as a basis for biological processes. J. Biomed. Semant. 4: 41 (2013) - [j3]Daniel L. Cook, Maxwell Lewis Neal, Robert Hoehndorf, Georgios V. Gkoutos, John H. Gennari:
Representing physiological processes and their participants with PhysioMaps. J. Biomed. Semant. 4(S-1): S2 (2013) - [c11]Nazanin Tabesh-Saleki, Brian E. Carlson, Christopher T. Thompson, Maxwell Lewis Neal, Daniel L. Cook, Mary Shimoyama:
Innovative Use of Ontologies: Association of Physiological Pathways to Corresponding Computational Models and Disparate Data Types. AMIA 2013 - [c10]Maxwell Lewis Neal, Daniel L. Cook, John H. Gennari:
An OWL knowledge base for classifying and querying collections of physiological models: A prototype human physiome. ICBO 2013: 16-21 - 2011
- [j2]Robert Hoehndorf, Michel Dumontier, John H. Gennari, Sarala M. Wimalaratne, Bernard de Bono, Daniel L. Cook, Georgios V. Gkoutos:
Integrating systems biology models and biomedical ontologies. BMC Syst. Biol. 5: 124 (2011) - [j1]John H. Gennari, Maxwell Lewis Neal, Michal Galdzicki, Daniel L. Cook:
Multiple ontologies in action: Composite annotations for biosimulation models. J. Biomed. Informatics 44(1): 146-154 (2011) - [c9]Daniel L. Cook, Michal Galdzicki, Maxwell Lewis Neal, José L. V. Mejino Jr., John H. Gennari:
HeartCyc: A Cardiac Cycle Process Ontology Based in the Ontology of Physics for Biology. ICBO 2011
2000 – 2009
- 2009
- [c8]Maxwell Lewis Neal, John H. Gennari, Theo Arts, Daniel L. Cook:
Advances in Semantic Representation for Multiscale Biosimulation: A Case Study in Merging Models. Pacific Symposium on Biocomputing 2009: 304-315 - 2008
- [c7]Daniel L. Cook, José L. V. Mejino Jr., Maxwell Lewis Neal, John H. Gennari:
Bridging Biological Ontologies and Biosimulation: The Ontology of Physics for Biology. AMIA 2008 - [c6]John H. Gennari, Maxwell Lewis Neal, Brian E. Carlson, Daniel L. Cook:
Integration of Multi-Scale Biosimulation Models via Light-Weight Semantics. Pacific Symposium on Biocomputing 2008: 414-425 - 2007
- [c5]Gary Yngve, James F. Brinkley, Daniel L. Cook, Linda G. Shapiro:
A Model Browser for Biosimulation. AMIA 2007 - [c4]Daniel L. Cook, Jesse C. Wiley, John H. Gennari:
Chalkboard: Ontology-Based Pathway Modeling And Qualitative Inference Of Disease Mechanisms. Pacific Symposium on Biocomputing 2007: 16-27 - 2006
- [c3]Daniel L. Rubin, David Grossman, Maxwell Lewis Neal, Daniel L. Cook, James B. Bassingthwaighte, Mark A. Musen:
Ontology-Based Representation of Simulation Models of Physiology. AMIA 2006 - 2005
- [c2]Cornelius Rosse, Anand Kumar, José L. V. Mejino Jr., Daniel L. Cook, Landon T. Detwiler, Barry Smith:
A Strategy for Improving and Integrating Biomedical Ontologies. AMIA 2005 - 2004
- [c1]Daniel L. Cook, José L. V. Mejino Jr., Cornelius Rosse:
Evolution of a Foundational Model of Physiology: Symbolic Representation for Functional Bioinformatics. MedInfo 2004: 336-340
Coauthor Index
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