Information Sciences Institute -

Burns, G. A. P. C., and J. A. Turner, "Modelling Functional Magnetic Resonance Imaging (fMRI) Experimental Variables in the Ontology of Experimental Variables and Values (OoEVV)", Neuroimage, pp. -, May 2013.

Cohen, K. B., M. Tallis, J. Blake, J. Eppig, R. Honda, and G. A. P. C. Burns, "Practical approach and infrastructure for the accelerated construction of biocuration systems", Biocuration 2013, Cambridge England, 04/2013.

Burns, G. A. P. C., and J. A. Turner, "Bottom-up curation of terminology for experimental variables: the Ontology of Experimental Variables and Values (OoEVV)", Bio-Ontologies SIG, ISMB, 2012.

Ramakrishnan, C., A. Patnia, E. H. Hovy, and G. A. P. C. Burns, LA-PDFText - Accurate Layout-Aware Text Extraction from Full-text PDF of Scientific Articles, , 2012.

Burns, G. A. P. C., and D. Dave, "A lightweight Ontology Design Pattern to curate and represent experimental variables from vaccine protection studies.", Vaccine and Drug Ontology in the Study of Mechanism and Effect, ICBO 2012, 2012.

Burns, G. A. P. C., M. Tallis, and J. A. Turner, "Modeling neuroanatomical experimental design using the Ontology of Experimental Variables and Values (OoEVV)", Neuro Informatics 2012, Munich, Germany, 2012.

Tallis, M., D. Dave, and G. A. P. C. Burns, "Preliminary meta-analyses of experimental design with examples from HIV vaccine protection studies", Discovery Informatics, Arlington, Virginia, 2012.

Russ, T. A., C. Ramakrishnan, E. H. Hovy, M. Bota, and G. A. P. C. Burns, "Knowledge Engineering Tools for Reasoning with Scientific Observations and Interpretations; a Neural Connectivity Use Case", BMC Bioinformatics, 08/2011.

Talley, E. M., D. Newman, D. Mimno, B. W. Herr, H. M. Wallach, G. A. P. C. Burns, M. A. G. Leenders, and A. McCallum, "Database of NIH grants using machine-learned categories and graphical clustering", Nature Methods, pp. 8(6):443-444, 05/2011.

Tallis, M., C. Ramakrishnan, T. Russ, and G. A. P. C. Burns, "BioScholar: A user- centered biocuration and knowledge management system that uses models of experimental design to drive knowledge acquisition and literature mining of neural connectivity data", Frontiers in Neuroinformatics, 2011. Abstract

Tallis, M., C. Ramakrishnan, T. A. Russ, and G. A. P. C. Burns, BioScholar: A user- centered biocuration and knowledge management system that uses models of experimental design to drive knowledge acquisition and literature mining of neural connectivity data, , 2011.

Tallis, M., R. Thompson, T. Russ, and G. A. P. C. Burns, "Knowledge synthesis with maps of neural connectivity", Frontiers in Neuroinformatics, vol. 5, 2011. Abstract

Pokkunuri, S., C. Ramakrishnan, E. Riloff, E. H. Hovy, and G. A. P. C. Burns, "The Role of Information Extraction in the Design of a Document Triage Application for Biocuration", Workshop on Biomedical Natural Language Processing (BioNLP 2011) at ACL/HLT 2011, Portland, Oregon, 2011. Abstract

Ramakrishnan, C., W. B. A. Jr., J. Blake, G. A. P. C. Burns, B. K. Cohen, H. Drabkin, J. Eppig, E. H. Hovy, C. - N. Hsu, L. E. Hunter, et al., "Building the Scientific Knowledge Mine (SciKnowMine): a community-driven framework for text mining tools in direct service to biocuration", LREC , 2010.

Ramakrishnan, C., W. B. A. Jr., J. Blake, G. A. P. C. Burns, B. K. Cohen, H. Drabkin, J. Eppig, E. Hovy, C. - N. Hsu, L. E. Hunter, et al., "Building the Scientific Knowledge Mine (SciKnowMine1): a community-driven framework for text mining tools in direct service to biocuration", Language Resources and Evaluation (LREC), Malta, 2010.

Burns, G. A. P. C., and T. A. Russ, "Biomedical knowledge engineering tools based on experimental design: a case study based on neuroanatomical tract-tracing experiments", K-CAP, pp. 173-174, 2009.

Burns, G. A. P. C., D. Feng, and E. H. Hovy, "Intelligent Approaches to Mining the Primary Research Literature: Techniques, Systems, and Examples", Computational Intelligence in Medical Informatics: Springer, 2008.

Burns, G. A. P. C., W. - C. Cheng, R. H. Thompson, and L. W. Swanson, "The NeuARt II system: a viewing tool for neuroanatomical data based on published neuroanatomical atlases", BMC Bioinformatics, vol. 7, pp. 531, 2006.

Burns, G. A. P. C., F. Bian, W. - C. Cheng, S. Kapadia, C. Shahabi, and S. Ghandeharizadeh, "Software engineering tools and approaches for neuroinformatics: the design and implementation of the View-Primitive Data Model framework (VPDMf)", Neurocomputing, vol. 44-46, pp. 1049-1056, 2002.