James F. Brinkley

Publication Activity (10 Years)

Years Active: 1985-2017
Publications (10 Years): 3

Top Topics

Genotype Phenotype

Top Venues

J. Biomed. Informatics

Artif. Intell. Medicine

Publications

José L. V. Mejino Jr., Landon T. Detwiler, Timothy C. Cox, James F. Brinkley
Cross-species Mapping of Human and Mouse Craniofacial Structures. AMIA (2017)
Landon T. Detwiler, José L. V. Mejino Jr., James F. Brinkley
From frames to OWL2: Converting the Foundational Model of Anatomy. Artif. Intell. Medicine 69 (2016)
José Leonardo Villaraza Mejino Jr., James F. Brinkley, Timothy C. Cox, Landon Detwiler
Multi-species Ontologies of the Craniofacial Musculoskeletal System. ICBO/BioCreative (2016)
Landon T. Detwiler, José L. V. Mejino Jr., James F. Brinkley
Converting the Foundational Model of Anatomy to OWL2. AMIA (2015)
B. Nolan Nichols, José L. V. Mejino Jr., Landon Detwiler, Trond T. Nilsen, Maryann E. Martone, Jessica A. Turner, Daniel L. Rubin, James F. Brinkley
Neuroanatomical domain of the foundational model of anatomy ontology. J. Biomed. Semant. 5 (2014)
José L. V. Mejino Jr., Ravensara S. Travillian, Timothy C. Cox, Linda G. Shapiro, James F. Brinkley
Human Development Domain of the Ontology of Craniofacial Development and Malformation. ICBO (2013)
Ida Sim, Simona Carini, Samson W. Tu, Landon Detwiler, James F. Brinkley, Shamin Mollah, Karl Burke, Harold P. Lehmann, Swati Chakraborty, Knut M. Wittkowski, Brad Pollock, Thomas Johnson, Vojtech Huser
Ontology-Based Federated Data Access to Human Studies Information. AMIA (2012)
James F. Brinkley, Landon Detwiler
A Query Integrator and Manager for the Query Web. J. Biomed. Informatics 45 (5) (2012)
Shane Steinert-Threlkeld, Siamak Ardekani, José L. V. Mejino Jr., Landon Detwiler, James F. Brinkley, Michael Halle, Ron Kikinis, Raimond L. Winslow, Michael I. Miller, J. Tilak Ratnanather
Ontological labels for automated location of anatomical shape differences. J. Biomed. Informatics 45 (3) (2012)
Marianne Shaw, Landon Detwiler, James F. Brinkley, Dan Suciu
A Dataflow Graph Transformation Language and Query Rewriting System for RDF Ontologies. SSDBM (2012)
Marianne Shaw, Landon Fridman Detwiler, Natalya Fridman Noy, James F. Brinkley, Dan Suciu
vSPARQL: A view definition language for the semantic web. J. Biomed. Informatics 44 (1) (2011)
B. Nolan Nichols, José L. V. Mejino Jr., James F. Brinkley
The Foundational Model of Neuroanatomy Ontology: An Ontology Framework to Support Neuroanatomical Data Integration. ICBO (2011)
Joshua D. Franklin, Alicia F. Guidry, James F. Brinkley
A partnership approach for Electronic Data Capture in small-scale clinical trials. J. Biomed. Informatics 44 (Supplement-1) (2011)
Shane Steinert-Threlkeld, Siamak Ardekani, José L. V. Mejino Jr., Landon Detwiler, James F. Brinkley, Michael Halle, Ron Kikinis, Raimond L. Winslow, Michael I. Miller, J. Tilak Ratnanather
Ontological Labels for Automated Location of Left Ventricular Remodeling. ICSC (2011)
Jessica A. Turner, José L. V. Mejino Jr., James F. Brinkley, Landon T. Detwiler, Hyo Jong Lee, Maryann E. Martone, Daniel L. Rubin
Application of neuroanatomical ontologies for neuroimaging data annotation. Frontiers Neuroinformatics 4 (2010)
Ira J. Kalet, José L. V. Mejino Jr., Vania Wang, Mark Whipple, James F. Brinkley
Content-specific auditing of a large scale anatomy ontology. J. Biomed. Informatics 42 (3) (2009)
Landon T. Detwiler, Dan Suciu, Joshua D. Franklin, Eider B. Moore, Andrew V. Poliakov, Eunjung Lee, David P. Corina, George A. Ojemann, James F. Brinkley
Distributed XQuery-based integration and visualization of multimodality brain mapping data. Frontiers Neuroinformatics 3 (2009)
Rosalia F. Tungaraza, J. Guan, S. M. Rolfe, Indriyati Atmosukarto, Andrew V. Poliakov, Natalia M. Kleinhans, Elizabeth H. Aylward, Jeffrey G. Ojemann, James F. Brinkley, Linda G. Shapiro
A similarity retrieval method for functional magnetic resonance imaging (fMRI) statistical maps. Medical Imaging: Image Processing (2009)
S. M. Rolfe, L. Finney, Rosalia F. Tungaraza, J. Guan, Linda G. Shapiro, James F. Brinkley, Andrew V. Poliakov, Natalia M. Kleinhans, E. Alyward
An independent component analysis based tool for exploring functional connections in the brain. Medical Imaging: Image Processing (2009)
José L. V. Mejino Jr., Daniel L. Rubin, James F. Brinkley
FMA-RadLex: An Application Ontology of Radiological Anatomy derived from the Foundational Model of Anatomy Reference Ontology. AMIA (2008)
Landon Detwiler, Dan Suciu, James F. Brinkley
Regular Paths in SparQL: Querying the NCI Thesaurus. AMIA (2008)
Marianne Shaw, Landon Detwiler, James F. Brinkley, Dan Suciu
Generating Application Ontologies from Reference Ontologies. AMIA (2008)
Andrew V. Poliakov, Xenia Hertzenberg, Eider B. Moore, David P. Corina, George A. Ojemann, James F. Brinkley
Unobtrusive integration of data management with fMRI analysis. Neuroinformatics 5 (1) (2007)
Eider B. Moore, Andrew V. Poliakov, Peter Lincoln, James F. Brinkley
MindSeer: a portable and extensible tool for visualization of structural and functional neuroimaging data. BMC Bioinform. 8 (2007)
Xiang Li, John H. Gennari, James F. Brinkley
XGI: A Graphical Interface for XQuery Creation. AMIA (2007)
Gary Yngve, James F. Brinkley, Daniel L. Cook, Linda G. Shapiro
A Model Browser for Biosimulation. AMIA (2007)
Nicholas R. Anderson, E. Sally Lee, J. Scott Brockenbrough, Mark E. Minie, Sherrilynne S. Fuller, James F. Brinkley, Peter Tarczy-Hornoch
Research Paper: Issues in Biomedical Research Data Management and Analysis: Needs and Barriers. J. Am. Medical Informatics Assoc. 14 (4) (2007)
Wayne Warren, Augusto V. Agoncillo, Joshua D. Franklin, James F. Brinkley
Intelligent Web-based Whole Body Visualization for Anatomy Education. AMIA (2006)
Hao Li, John H. Gennari, James F. Brinkley
Model Driven Laboratory Information Management Systems. AMIA (2006)
Christine Fong, James F. Brinkley
Customizable Electronic Laboratory Online (CELO): A Web-based Data Management System Builder for Biomedical Research Laboratories. AMIA (2006)
Landon Detwiler, James F. Brinkley
Custom Views of Reference Ontologies. AMIA (2006)
James F. Brinkley, Dan Suciu, Landon Detwiler, John H. Gennari, Cornelius Rosse
A framework for using reference ontologies as a foundation for the semantic web. AMIA (2006)
Kelan Wang, Peter Tarczy-Hornoch, Ron Shaker, Peter Mork, James F. Brinkley
BioMediator Data Integration: Beyond Genomics to Neuroscience Data. AMIA (2005)
Andrew V. Poliakov, Evan Albright, Kevin P. Hinshaw, David P. Corina, George A. Ojemann, Richard F. Martin, James F. Brinkley
Application of Information Technology: Server-based Approach to Web Visualization of Integrated Three-dimensional Brain Imaging Data. J. Am. Medical Informatics Assoc. 12 (2) (2005)
Sophia Jeng, Kelan Wang, Janos Barbero, James F. Brinkley, Peter Tarczy-Hornoch
A Pilot Bridging Data Integration and Analytics: BioMediator and R? AMIA (2005)
Linda G. Shapiro, Emily Chung, Landon Detwiler, José L. V. Mejino Jr., Augusto V. Agoncillo, James F. Brinkley, Cornelius Rosse
Application of Information Technology: Processes and Problems in the Formative Evaluation of an Interface to the Foundational Model of Anatomy Knowledge Base. J. Am. Medical Informatics Assoc. 12 (1) (2005)
E. Sally Lee, Dan Suciu, James F. Brinkley
Automatic XQuery Generation and Generalized Visualization for an XML Interface to a Relational Database. AMIA (2005)
Nathan Bales, James F. Brinkley, E. Sally Lee, Shobhit Mathur, Christopher Ré, Dan Suciu
A Framework for XML-Based Integration of Data, Visualization and Analysis in a Biomedical Domain. XSym (2005)
Wayne Warren, James F. Brinkley
Knowledge-Based, Interactive, Custom Anatomical Scene Creation for Medical Education: The Biolucida System. AMIA (2005)
Landon T. Detwiler, Emily Chung, Ann Li, José L. V. Mejino Jr., Augusto V. Agoncillo, James F. Brinkley, Cornelius Rosse, Linda G. Shapiro
A Relation-Centric Query Engine for the Foundational Model of Anatomy. MedInfo (2004)
Zhengming Tang, Yana Kadiyska, Hao Li, Dan Suciu, James F. Brinkley
Dynamic XML-Based Exchange of Relational Data: Application to the Human Brain Project. AMIA (2003)
Peter Mork, James F. Brinkley, Cornelius Rosse
OQAFMA Querying Agent for the Foundational Model of Anatomy: a prototype for providing flexible and efficient access to large semantic networks. J. Biomed. Informatics 36 (6) (2003)
Richard F. Martin, Kurt L. Rickard, José L. V. Mejino Jr., Augusto V. Agoncillo, James F. Brinkley, Cornelius Rosse
The Evolving Neuroanatomical Component of the Foundational Model of Anatomy. AMIA (2003)
Daniel Gardner, Arthur W. Toga, Giorgio A. Ascoli, Jackson T. Beatty, James F. Brinkley, Anders M. Dale, Peter T. Fox, Esther P. Gardner, John S. George, Nigel H. Goddard, Kristen M. Harris, Edward Herskovits, Michael L. Hines, Gwen A. Jacobs, Russell E. Jacobs, Edward G. Jones, David N. Kennedy, Daniel Y. Kimberg, John C. Mazziotta, Perry L. Miller, Susumu Mori, David C. Mountain, Allan L. Reiss, Glenn D. Rosen, David A. Rottenberg, Gordon M. Shepherd, Neil R. Smalheiser, Kenneth P. Smith, Tom Strachan, David C. Van Essen, Robert W. Williams, Stephen T. C. Wong
Towards effective and rewarding data sharing. Neuroinformatics 1 (3) (2003)
Gregory Distelhorst, Vishrut Srivastava, Cornelius Rosse, James F. Brinkley
A Prototype Natural Language Interface to a Large Complex Knowledge Base, the Foundational Model of Anatomy. AMIA (2003)
Landon T. Detwiler, José L. V. Mejino Jr., Cornelius Rosse, James F. Brinkley
Efficient Web-Based Navigation of the Foundational Model of Anatomy. AMIA (2003)
Peter Mork, Dan Suciu, James F. Brinkley, Cornelius Rosse
A Declarative Query Interface for Large Semantic Networks. AMIA (2002)
James F. Brinkley, Rex M. Jakobovits, Cornelius Rosse
An Online Image Management System for Anatomy Teaching. AMIA (2002)
Rex M. Jakobovits, Cornelius Rosse, James F. Brinkley
Application of Information Technology: WIRM: An Open Source Toolkit for Building Biomedical Web Applications. J. Am. Medical Informatics Assoc. 9 (6) (2002)
Kevin P. Hinshaw, Andrew V. Poliakov, Eider B. Moore, Richard F. Martin, Linda G. Shapiro, James F. Brinkley
Shape-Based Cortical Surface Segmentation for Visualization Brain Mapping. NeuroImage 16 (2) (2002)
José L. V. Mejino Jr., Natalya Fridman Noy, Mark A. Musen, James F. Brinkley, Cornelius Rosse
Representation of Structural Relationships in the Foundational Model of Anatomy. AMIA (2001)
Rex M. Jakobovits, James F. Brinkley, Cornelius Rosse, Ed Weinberger
Enabling clinicians, researchers, and educators to build custom web-based biomedical information systems. AMIA (2001)
Andrew V. Poliakov, Evan Albright, David P. Corina, George A. Ojemann, Richard F. Martin, James F. Brinkley
Server-based approach to web visualization of integrated 3-D medical image data. AMIA (2001)
Richard F. Martin, José L. V. Mejino Jr., Douglas M. Bowden, James F. Brinkley, Cornelius Rosse
Foundational model of neuroanatomy: implications for the Human Brain Project. AMIA (2001)
William B. Lober, James F. Brinkley
A Personal Annotated Image Server. AMIA (2000)
Rex M. Jakobovits, Stephen Soderland, Ricky K. Taira, James F. Brinkley
Requirements of a Web-based experiment management system. AMIA (2000)
William B. Lober, James F. Brinkley
A Portable Image Annotation Tool for Web-based Anatomy Atlases. AMIA (1999)
Andrew V. Poliakov, Kevin P. Hinshaw, Cornelius Rosse, James F. Brinkley
Integration and visualization of multimodality brain data for language mapping. AMIA (1999)
Ira J. Kalet, J. Wu, M. Lease, Mary M. Austin-Seymour, James F. Brinkley, Cornelius Rosse
Anatomical information in radiation treatment planning. AMIA (1999)
Benjamin A. Wong, Cornelius Rosse, James F. Brinkley
Semi-automatic scene generation using the Digital Anatomist Foundational Model. AMIA (1999)
Jin S. Hahn, Elizabeth S. Burnside, James F. Brinkley, Cornelius Rosse, Mark A. Musen
Representing the Digital Anatomist Foundational Model as a Protege Ontology. AMIA (1999)
James F. Brinkley, Benjamin A. Wong, Kevin P. Hinshaw, Cornelius Rosse
Design of an Anatomy Information System. IEEE Computer Graphics and Applications 19 (3) (1999)
Sara Kim, James F. Brinkley, Cornelius Rosse
Design features of on-line anatomy information resources: a comparison with the Digital Anatomist. AMIA (1999)
Benjamin A. Wong, James F. Brinkley
Dynamic 3-D Scene Navigation in Web-Based Anatomy Atlases. AMIA (1998)
James F. Brinkley, Cornelius Rosse
Requirements for an on-line knowledge-based anatomy information system. AMIA (1998)
Kevin P. Hinshaw, James F. Brinkley
Incorporating constraint-based shape models into an interactive system for functional brain mapping. AMIA (1998)
Cornelius Rosse, José L. V. Mejino Jr., Bharath R. Modayur, Rex M. Jakobovits, Kevin P. Hinshaw, James F. Brinkley
Research Paper: Motivation and Organizational Principles for Anatomical Knowledge Representation: The Digital Anatomist Symbolic Knowledge Base. J. Am. Medical Informatics Assoc. 5 (1) (1998)
Cornelius Rosse, Linda G. Shapiro, James F. Brinkley
The digital anatomist foundational model: principles for defining and structuring its concept domain. AMIA (1998)
Rex M. Jakobovits, James F. Brinkley
Query-by-Context: A Framework for Modeling and Navigating Multimedia Research. AMIA (1998)
Rex M. Jakobovits, James F. Brinkley
Managing medical research data with a Web-Interfacing Repository Manager. AMIA (1997)
Bharath R. Modayur, Rex M. Jakobovits, Kenneth Maravilla, George A. Ojemann, James F. Brinkley
Evaluation of a visualization-based approach to functional brain mapping. AMIA (1997)
James F. Brinkley, Jeffrey S. Prothero
Slisp: A Flexible Software Toolkit for Hybrid, Embedded and Distributed Applications. Softw. Pract. Exp. 27 (1) (1997)
James F. Brinkley, Cornelius Rosse
Synthesis of Research: The Digital Anatomist Distributed Framework and Its Applications to Knowledge-based Medical Imaging. J. Am. Medical Informatics Assoc. 4 (3) (1997)
Kevin P. Hinshaw, James F. Brinkley
Using 3-D shape models to guide segmentation of MR brain images. AMIA (1997)
Rex M. Jakobovits, Lara M. Lewis, James P. Ahrens, Linda G. Shapiro, Steven L. Tanimoto, James F. Brinkley
A Visual Database Environment for Scientific Research. J. Vis. Lang. Comput. 7 (4) (1996)
D. J. Dailey, James F. Brinkley
A metric for quantifying response time in a browser application. IEEE Trans. Syst. Man Cybern. Part A 26 (2) (1996)
James F. Brinkley, Russ B. Altman, Bruce S. Duncan, Bruce G. Buchanan, Oleg Jardetzky
Heuristic refinement method for the derivation of protein solution structures: validation on cytochrome b562. J. Chem. Inf. Comput. Sci. 28 (4) (1988)
Barbara Hayes-Roth, Bruce G. Buchanan, Olivier Lichtarge, Mike Hewitt, Russ B. Altman, James F. Brinkley, Craig Cornelius, Bruce S. Duncan, Oleg Jardetzky
PROTEAN: Deriving Protein Structure from Constraints. AAAI (1986)
James F. Brinkley
Knowledge-Driven Ultrasonic Three-Dimensional Organ Modeling. IEEE Trans. Pattern Anal. Mach. Intell. 7 (4) (1985)