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2020 – today
- 2021
[j12]Ciaran M. Welsh, David P. Nickerson, Anand Rampadarath
, Maxwell Lewis Neal, Herbert M. Sauro, John H. Gennari:
libOmexMeta: enabling semantic annotation of models to support FAIR principles. Bioinform. 37(24): 4898-4900 (2021)- [j11]John H. Gennari, Matthias König, Goksel Misirli, Maxwell Lewis Neal, David P. Nickerson, Dagmar Waltemath:
OMEX metadata specification (version 1.2). J. Integr. Bioinform. 18(3) (2021) - 2020
- [j10]Maxwell Lewis Neal, John H. Gennari, Dagmar Waltemath, David P. Nickerson, Matthias König:
Open modeling and exchange (OMEX) metadata specification version 1.0. J. Integr. Bioinform. 17(2-3) (2020)
2010 – 2019
- 2019
- [j9]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) - [j8]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) - [j7]Dewan M. Sarwar, Reza Kalbasi, John H. Gennari, Brian E. Carlson, Maxwell Lewis Neal, Bernard de Bono, Koray Atalag, Peter J. Hunter, David P. Nickerson:
Model annotation and discovery with the Physiome Model Repository. BMC Bioinform. 20(1): 457:1-457:10 (2019) - [c10]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
- [c9]Daniel L. Cook, John H. Gennari, Maxwell Lewis Neal:
Extending the Ontology of Physics for Biology with Thermodynamics. ICBO 2017 - 2016
- [c8]Maxwell Lewis Neal, John H. Gennari, Daniel L. Cook:
Qualitative Causal Analyses of Biosimulation Models. ICBO/BioCreative 2016 - 2014
- [j6]Maxwell Lewis Neal, Michal Galdzicki, J. T. Gallimore, Herbert M. Sauro:
A C library for retrieving specific reactions from the BioModels database. Bioinform. 30(1): 129-130 (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) - [c7]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 - [c6]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]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) - [c5]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 - 2010
- [j1]Maxwell Lewis Neal, Roy Kerckhoffs:
Current progress in patient-specific modeling. Briefings Bioinform. 11(1): 111-126 (2010)
2000 – 2009
- 2009
- [c4]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
- [c3]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 - [c2]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 - 2006
- [c1]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
Coauthor Index
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