John Boyle

Publication Activity (10 Years)

Years Active: 1993-2018
Publications (10 Years): 3

Top Topics

Named Entity Recognition

Distributed Computing

Top Venues

Briefings Bioinform.

J. Cheminformatics

Database J. Biol. Databases Curation

Publications

Peter Corbett, John Boyle
Improving the learning of chemical-protein interactions from literature using transfer learning and specialized word embeddings. Database J. Biol. Databases Curation 2018 (2018)
Peter Corbett, John Boyle
Chemlistem: chemical named entity recognition using recurrent neural networks. J. Cheminformatics 10 (1) (2018)
Zoltán Ádám Mann, Eliot E. Salant, Mike Surridge, Dhouha Ayed, John Boyle, Maritta Heisel, Andreas Metzger, Paul Mundt
Secure Data Processing in the Cloud. ESOCC Workshops (2017)
Steven Lewis, Attila Csordas, Sarah A. Killcoyne, Henning Hermjakob, Michael R. Hoopmann, Robert L. Moritz, Eric W. Deutsch, John Boyle
Hydra: a scalable proteomic search engine which utilizes the Hadoop distributed computing framework. BMC Bioinform. 13 (2012)
John Boyle, Richard Kreisberg, Ryan Bressler, Sarah A. Killcoyne
Methods for visual mining of genomic and proteomic data atlases. BMC Bioinform. 13 (2012)
Ryan Bressler, Jake Lin, Andrea Eakin, Thomas Robinson, Richard Kreisberg, Hector Rovira, Theo A. Knijnenburg, John Boyle, Ilya Shmulevich
Fastbreak: a tool for analysis and visualization of structural variations in genomic data. EURASIP J. Bioinform. Syst. Biol. 2012 (2012)
Sarah A. Killcoyne, Jeremy Handcock, Thomas Robinson, Eric W. Deutsch, John Boyle
Interfaces to PeptideAtlas: a case study of standard data access systems. Briefings Bioinform. 13 (5) (2012)
Theo A. Knijnenburg, Jake Lin, Hector Rovira, John Boyle, Ilya Shmulevich
EPEPT: A web service for enhanced P-value estimation in permutation tests. BMC Bioinform. 12 (2011)
David B. Burdick, Christopher C. Cavnor, Jeremy Handcock, Sarah A. Killcoyne, Jake Lin, Bruz Marzolf, Stephen A. Ramsey, Hector Rovira, Ryan Bressler, Ilya Shmulevich, John Boyle
SEQADAPT: an adaptable system for the tracking, storage and analysis of high throughput sequencing experiments. BMC Bioinform. 11 (2010)
Hector Rovira, Sarah A. Killcoyne, Ilya Shmulevich, John Boyle
An Integration Architecture Designed to Deal with the Issues of Biological Scope, Scale and Complexity. DILS (2010)
Steven Lewis, Sheila Reynolds, Hector Rovira, Mike O'Leary, Sarah A. Killcoyne, Ilya Shmulevich, John Boyle
Howdah - A Flexible Pipeline Framework for Analyzing Genomic Data. CloudCom (2010)
Sarah A. Killcoyne, John Boyle
Managing Chaos: Lessons Learned Developing Software in the Life Sciences. Comput. Sci. Eng. 11 (6) (2009)
John Boyle, Hector Rovira, Christopher C. Cavnor, David B. Burdick, Sarah A. Killcoyne, Ilya Shmulevich
Adaptable data management for systems biology investigations. BMC Bioinform. 10 (2009)
John Boyle, Christopher C. Cavnor, Sarah A. Killcoyne, Ilya Shmulevich
Systems biology driven software design for the research enterprise. BMC Bioinform. 9 (2008)
John Boyle
Gene-Expression Omnibus integration and clustering Tools in SeqExpress. Bioinform. 21 (10) (2005)
John Boyle
SeqExpress: desktop analysis and visualization tool for gene expression experiments. Bioinform. 20 (10) (2004)
John Boyle, Scott Leishman, Peter M. D. Gray
From WIMPS to 3D: The Development of AMAZE. J. Vis. Lang. Comput. 7 (3) (1996)
John Boyle, Peter M. D. Gray
The Design of 3D metaphors for Database Visualisation. VDB (1995)
John Boyle, John E. Fothergill, Peter M. D. Gray
Design of a 3D User Interface to a Database. IDS (1994)
John Boyle, Stephen G. Eick, Matthias L. Hemmje, Daniel A. Keim, John Peter Lee, Eric E. Sumner Jr.
Database Issues for Data Visualization: Interaction, User Interfaces, and Presentation. Workshop on Database Issues for Data Visualization (1993)
John Boyle, John E. Fothergill, Peter M. D. Gray
Design of a 3D User Interface to a Database. Workshop on Database Issues for Data Visualization (1993)