Publications

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2014

S. Maetschke, M. Ragan
Characterizing cancer subtypes as attractors of Hopfield networks.
Bioinformatics 2014; doi: 10.1093/bioinformatics/btt773

2013

S. Maetschke, P. Madhamshettiwar, M. Davis, M. Ragan
Supervised, semi-supervised and unsupervised inference of gene regulatory networks.
Briefings in Bioinformatics 2013, 15 (2): 195-211
P. Madhamshettiwar, S. Maetschke, M. Davis, M. Ragan
RMaNI: Regulatory Module Network Inference framework.
BMC Bioinformatics 2013, 14(Suppl 16):S14

2012

S. Maetschke, M. Simonsen, J. Davis, M. Ragan
Gene Ontology-driven inference of protein-protein interactions using inducers.
Bioinformatics 2012, 28: 69-75.

2010

S. Maetschke, K. Kassahn, J. Dunn, S. Han, E. Curley, K. Stacey, M. Ragan
A visual framework for sequence analysis using n-grams and spectral rearrangement.
Bioinformatics, 26 (6): 737-744.

2009

S. Maetschke, Z. Yuan
Exploiting structural and topological information to improve prediction of RNA-protein binding sites.
BMC Bioinformatics, 10:341
S. Maetschke
Computational protein localization prediction.
VDM Verlag, ISBN:3639137418

2008

I. Arieshanti, M. Bodén, S. Maetschke and F. A. Buske
Enzyme Recognition: Detecting Sequence and Structure Homology via an Integrative Kernel.
IEEE SSCI 2009
2009 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology
S. Maetschke, M. Towsey and J. Hogan
BioPatML - Pattern Sharing for the Genomic Sciences.
Microsoft eScience Workshop, Dec 7-9, 2008, Indianapolis
F. A. Buske, S. Maetschke and M. Bodén
Itís about time: signal recognition in staged models of protein translocation.
Pattern Recognition special issue on CMLS-2007
doi: http://dx.doi.org/10.1016/j.patcog.2008.09.020

2007

S. Maetschke, M. Gallagher, M. Bodén
A Comparison of Sequence Kernels for Localization Prediction of Transmembrane Proteins.
Computational Intelligence and Bioinformatics and Computational Biology (CIBCB).
IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, 367-372.
J. Hawkins, D. Mahony, S. Maetschke, M. Wakabayashi, R. Teasdale, M. Bodén
Identifying novel peroxisomal proteins.
Proteins: Structure, Function, and Bioinformatics.
J. Watson, S. Maetschke, J. Wiles
An introduction to Dsweep, a lightweight tool for distributed parameter sweeps.
Proceedings of the Seventh International Workshop on Information Processing in Cells and Tissues (IPCAT),
Oxford 29-31 August 2007, 400-408.
B. Grech, S. Maetschke, S. Mathews, P. Timms
Genome wide analysis of chlamydiae for promoters that phylogenetically footprint.
Research in Microbiology.
S. Maetschke
Topological models of transmembrane proteins for subcellular localization prediction.
PhD thesis, School of Information Technology and Electrical Engineering, 2007.

2006

L. Davis, J. Hawkins, S. Maetschke, M. Bodén
Comparing SVM Sequence Kernels: A Subcellular Localization Theme.
In Proc. 2006 Workshop on Intelligent Systems for Bioinformatics (WISB 2006),
Hobart, Australia. CRPIT, 73. Bodén, M. and Bailey, T. L., Eds., ACS. 39-47.
S. Maetschke, M. Bodén, M. Gallagher
Higher Order HMMs for Localization Prediction of Transmembrane Proteins.
In Proc. 2006 Workshop on Intelligent Systems for Bioinformatics (WISB 2006),
Hobart, Australia. CRPIT, 73. Bodén, M. and Bailey, T. L., Eds., ACS. 49-53.
S. Maetschke, M. Towsey and J. Hogan
Bacterial Promoter Modeling and Prediction for E. Coli and B. Subtilis with Beagle.
In Proc. 2006 Workshop on Intelligent Systems for Bioinformatics (WISB 2006),
Hobart, Australia. CRPIT, 73. Bodén, M. and Bailey, T. L., Eds., ACS. 9-13.

2005

S. Maetschke, M. Towsey, M. Bodén
BLOMAP: An encoding which improves signal peptide cleavage site prediction.
Third Asia Pacific Bioinformatics Conference, Singapore, 141-150.
M. Wakabajashi, J. Hawkins, S. Maetschke, M. Bodén
Exploiting sequence dependencies in the prediction of peroxisomal proteins.
Intelligent Data Engineering and Automated Learning (IDEAL 2005), Brisbane, 454-461.