Sequence Representations and Their Utility for Predicting Protein-Protein Interactions - Dhananjay Kimothi; Pravesh Biyani; James M. Hogan; Melissa J. Davis (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Collaborative Sense-Making in Genomic Research: The Role of Visualisation - Markus Rittenbruch; Kellie Vella; Margot Brereton; James M. Hogan; Daniel Johnson; Julian Heinrich; Seán I. O'Donoghue (IEEE Trans. Vis. Comput. Graph., 2022)

Accelerating Binary String Comparisons with a Scalable, Streaming-Based System Architecture Based on FPGAs - Sarah Pilz; Florian Porrmann; Martin Kaiser; Jens Hagemeyer; James M. Hogan; Ulrich Rückert (Algorithms, 2020)

Alignment-free inference of hierarchical and reticulate phylogenomic relationships - Guillaume Bernard; Cheong Xin Chan; Yao-ban Chan; Xin-Yi Chua; Yingnan Cong; James M. Hogan; Stefan R. Maetschke; Mark A. Ragan (Briefings Bioinform., 2019)

Rapid analysis of metagenomic data using signature-based clustering - Timothy Chappell; Shlomo Geva; James M. Hogan; Flavia Huygens; Irani U. Rathnayake; Stephen Rudd; Wayne Kelly; Dimitri Perrin (BMC Bioinform., 2018)

Rapid hierarchical clustering of biological sequences - Timothy Chappell; Shlomo Geva; James M. Hogan; Dimitri Perrin (Proceedings of the 23rd Australasian Document Computing Symposium, ADCS 2018, Dunedin, New Zealand, December 11-12, 2018, 2018)

Protein database search using compressed k-mer vocabularies - Lawrence Buckingham; Shlomo Geva; James M. Hogan (Proceedings of the 23rd Australasian Document Computing Symposium, ADCS 2018, Dunedin, New Zealand, December 11-12, 2018, 2018)

K-Means Clustering of Biological Sequences - Timothy Chappell; Shlomo Geva; James M. Hogan (Proceedings of the 22nd Australasian Document Computing Symposium, ADCS 2017, Brisbane, QLD, Australia, December 7-8, 2017, 2017)

Signature-based clustering for analysis of the wound microbiome - Timothy Chappell; Shlomo Geva; James M. Hogan; Flavia Huygens; Wayne Kelly; Dimitri Perrin (2017 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2017, Kansas City, MO, USA, November 13-16, 2017, 2017)

Similarity Projection: A Geometric Measure for Comparison of Biological Sequences - Lawrence Buckingham; Timothy Chappell; James M. Hogan; Shlomo Geva (13th IEEE International Conference on e-Science, e-Science 2017, Auckland, New Zealand, October 24-27, 2017, 2017)

Iterative Design and Evaluation of Regulatory Network Visualisation at Scale - Samuel Thomas Smith; James Michael Hogan; Xin-Yi Chua; Margot Brereton; Daniel M. Johnson; Markus Rittenbruch (13th IEEE International Conference on e-Science, e-Science 2017, Auckland, New Zealand, October 24-27, 2017, 2017)

Metric learning on biological sequence embeddings - Dhananjay Kimothi; Ankita Shukla; Pravesh Biyani; Saket Anand; James M. Hogan (18th IEEE International Workshop on Signal Processing Advances in Wireless Communications, SPAWC 2017, Sapporo, Japan, July 3-6, 2017, 2017)

Evaluating Viewpoint Entropy for Ribbon Representation of Protein Structure - Julian Heinrich; Jenny Vuong; Christopher J. Hammang; A. Wu; Markus Rittenbruch; James M. Hogan; Margot Brereton; Seán I. O'Donoghue (Comput. Graph. Forum, 2016)

Can Videogame Players Inform Better Scientific Visualization' - Holly Hutson; Daniel M. Johnson; Xin-Yi Chua; James M. Hogan; Margot Brereton; Markus Rittenbruch; Benedetta Frida Baldi; Seán I. O'Donoghue (Proceedings of the 2016 Annual Symposium on Computer-Human Interaction in Play, Companion Extended Abstracts, CHI PLAY 2016, Austin, TX, USA, October 16 - 19, 2016, 2016)

Using videogames to improve molecular graphics tools - Zachary Fitz-Walter; Seán I. O'Donoghue; Benedetta Frida Baldi; James M. Hogan; Daniel M. Johnson; Margot Brereton (Proceedings of the 28th Australian Conference on Computer-Human Interaction, OzCHI 2016, Launceston, Tasmania, Australia, November 29 - December 2, 2016, 2016)

Distributed Representations for Biological Sequence Analysis - Dhananjay Kimothi; Akshay Soni; Pravesh Biyani; James M. Hogan (CoRR, 2016)

Large Scale Comparative Visualisation of Regulatory Networks with TRNDiff - Xin-Yi Chua; Lawrence Buckingham; James M. Hogan; Pavel S. Novichkov (Proceedings of the International Conference on Computational Science, ICCS 2015, Computational Science at the Gates of Nature, Reykjavík, Iceland, 1-3 June, 2015, 2014, 2015)

Planting Bugs: A System for Testing Students' Unit Tests - Samuel A. Brian; Richard N. Thomas; James M. Hogan; Colin J. Fidge (Proceedings of the 2015 ACM Conference on Innovation and Technology in Computer Science Education, ITiCS 2015, Vilnius, Lithuania, July 4-8, 2015, 2015)

Visual Analytics for Large-Scale Bioinformatic Data Sets - Samuel Thomas Smith; James M. Hogan; Markus Rittenbruch; Daniel M. Johnson; Margot Brereton (Proceedings of the Annual Meeting of the Australian Special Interest Group for Computer Human Interaction, OZCHI 2015, Parkville, VIC, Australia, December 7-10, 2015, 2015)

Locality-Sensitive Hashing for Protein Classification - Lawrence Buckingham; James M. Hogan; Shlomo Geva; Wayne Kelly (Twelfth Australasian Data Mining Conference, AusDM 2014, Brisbane, Australia, November 2014, 2014)

Computational Science for Undergraduate Biologists via QUT.Bio.Excel - Lawrence Buckingham; James M. Hogan (Proceedings of the International Conference on Computational Science, ICCS 2014, Cairns, Queensland, Australia, 10-12 June, 2014, 2014)

Large Scale Read Classification forNext Generation Sequencing - James M. Hogan; Timothy Peut (Proceedings of the International Conference on Computational Science, ICCS 2014, Cairns, Queensland, Australia, 10-12 June, 2014, 2014)

Predicting Fault-Prone Software Modules with Rank Sum Classification - Jaspar Cahill; James M. Hogan; Richard N. Thomas (22nd Australian Conference on Software Engineering (ASWEC 2013), 4-7 June 2013, Melbourne, Victoria, Australia, 2013)

Consensus Sigma-70 Promoter Prediction Using Hadoop - James M. Hogan; Wayne Kelly; Felicity Newell (9th IEEE International Conference on eScience, eScience 2013, Beijing, China, October 22-25, 2013, 2013)

Recruitment Learning - Joachim Diederich; Cengiz Günay; James M. Hogan (Springer, 2011)

Biomashups: the new world of exploratory bioinformatics? - James M. Hogan; Jiro Sumitomo; Paul Roe; Felicity Newell (Concurr. Comput. Pract. Exp., 2011)

The cross-species prediction of bacterial promoters using a support vector machine - Michael W. Towsey; Peter Timms; James M. Hogan; Sarah A. Mathews (Comput. Biol. Chem., 2008)

Comparative Studies Made Simple in GPFlow - Lawrence Buckingham; James M. Hogan; Paul Roe; Jiro Sumitomo; Michael W. Towsey (8th IEEE International Symposium on Cluster Computing and the Grid (CCGrid 2008), 19-22 May 2008, Lyon, France, 2008)

BioMashups: The New World of Exploratory Bioinformatics? - Jiro Sumitomo; James M. Hogan; Felicity Newell; Paul Roe (Fourth International Conference on e-Science, e-Science 2008, 7-12 December 2008, Indianapolis, IN, USA, 2008)

Comparative Studies Simplified in GPFlow - Lawrence Buckingham; James M. Hogan; Paul Roe; Jiro Sumitomo; Michael W. Towsey (Computational Science - ICCS 2008, 8th International Conference, Kraków, Poland, June 23-25, 2008, Proceedings, Part III, 2008)

Improved prediction of bacterial transcription start sites - James J. Gordon; Michael W. Towsey; James M. Hogan; Sarah A. Mathews; Peter Timms (Bioinform., 2006)

The Prediction of Bacterial Transcription Start Sites Using Svms - Michael W. Towsey; James J. Gordon; James M. Hogan (Int. J. Neural Syst., 2006)

Developing the Software Engineering Team - James M. Hogan; Richard N. Thomas (Seventh Australasian Computing Education Conference (ACE 2005), Newcastle, NSW, Australia, January/February 2005, 2005)

Tight Spirals and Industry Clients: The Modern SE Education Experience - James M. Hogan; Glenn Smith; Richard N. Thomas (Seventh Australasian Computing Education Conference (ACE 2005), Newcastle, NSW, Australia, January/February 2005, 2005)

Quality Assurance in a Student-Based Agile Software Engineering Process - Andrew Marrington; James M. Hogan; Richard N. Thomas (16th Australian Software Engineering Conference (ASWEC 2005), 31 March - 1 April 2005, Brisbane, Australia, 2005)

Intelligent Data Engineering and Automated Learning - IDEAL 2005, 6th International Conference, Brisbane, Australia, July 6-8, 2005, Proceedings - Marcus Gallagher; James M. Hogan; Frédéric Maire (Springer, 2005)

Key Challenges in Software Internationalisation - James M. Hogan; Chris Ho-Stuart; Bihn Pham (ACSW Frontiers 2004, 2004 ACSW Workshops - the Australasian Information Security Workshop (AISW2004), the Australasian Workshop on Data Mining and Web Intelligence (DMWI2004), and the Australasian Workshop on Software Internationalisation (AWSI2004) . Dunedin, New Zealand, January 2004, 2004)

Developing and Delivering a Software Internationalisation Subject - Tony R. Sahama; Chris Ho-Stuart; James M. Hogan (ACSW Frontiers 2004, 2004 ACSW Workshops - the Australasian Information Security Workshop (AISW2004), the Australasian Workshop on Data Mining and Web Intelligence (DMWI2004), and the Australasian Workshop on Software Internationalisation (AWSI2004) . Dunedin, New Zealand, January 2004, 2004)

ACSW Frontiers 2004, 2004 ACSW Workshops - the Australasian Information Security Workshop (AISW2004), the Australasian Workshop on Data Mining and Web Intelligence (DMWI2004), and the Australasian Workshop on Software Internationalisation (AWSI2004) . Dunedin, New Zealand, January 2004 - James M. Hogan; Paul Montague; Martin K. Purvis; Chris Steketee (Australian Computer Society, 2004)

Recruitment learning in randomly connected neural networks - James M. Hogan (Queensland University of Technology, Brisbane, Australia, 2002)

Advanced mean field methods: theory and practice: M. Opper and D. Saad (Eds.); MIT Press, Cambridge, MA, 2001, 300pp. ISBN 0-262-15054-9 - James M. Hogan (Neurocomputing, 2002)

The Real World Software Process - James M. Hogan; Glenn Smith; Richard N. Thomas (9th Asia-Pacific Software Engineering Conference (APSEC 2002), 4-6 December 2002, Gold Coast, Queensland, Australia, 2002)

The Java Metrics Reporter- An Extensible Tool for 00 Software Analysis - Jaspar Cahill; James M. Hogan; Richard N. Thomas (9th Asia-Pacific Software Engineering Conference (APSEC 2002), 4-6 December 2002, Gold Coast, Queensland, Australia, 2002)

Recruitment Learning Of Boolean Functions In Sparse Random Networks - James M. Hogan; Joachim Diederich (Int. J. Neural Syst., 2001)

Selective Attention and the Acquisition of Spatial Semantics - James M. Hogan; Joachim Diederich; Gerard D. Finn (Proceedings of the Joint Conference on New Methods in Language Processing and Computational Natural Language Learning, NeMLaP/CoNLL 1998, Macquarie University, Sydney, NSW, Australia, January 11-17, 1998, 1998)

Australian Approaches to Internet Content Regulation - James M. Hogan; Peter C. J. James (Aust. Comput. J., 1997)

A chosen plaintext attack on an adaptive arithmetic coding compression algorithm - Helen A. Bergen; James M. Hogan (Comput. Secur., 1993)

Data security in a fixed-model arithmetic coding compression algorithm - Helen A. Bergen; James M. Hogan (Comput. Secur., 1992)