Mark A. Ragan

41 papers A 1B 2Misc 2Journal 32Unranked 4
YearRankTypeTitle / Venue / Authors
2019 J jnl
Alignment-free inference of hierarchical and reticulate phylogenomic relationships.
Briefings Bioinform.
Guillaume Bernard, Cheong Xin Chan, Yao-ban Chan, Xin-Yi Chua, Yingnan Cong, James M. Hogan, Stefan R. Maetschke, Mark A. Ragan
2015 J jnl
Breast cancer classification: linking molecular mechanisms to disease prognosis.
Briefings Bioinform.
Atefeh Taherian Fard, Sriganesh Srihari, Mark A. Ragan
2014 J jnl
Characterizing cancer subtypes as attractors of Hopfield networks.
Bioinform.
Stefan Maetschke, Mark A. Ragan
2014 J jnl
Complex-based analysis of dysregulated cellular processes in cancer.
BMC Syst. Biol.
Sriganesh Srihari, Piyush B. Madhamshettiwar, Sarah Song, Chao Liu, Peter T. Simpson, Kum Khanna, Mark A. Ragan
2014 J jnl
Evolution and Controllability of CancerNetworks: A Boolean Perspective.
IEEE ACM Trans. Comput. Biol. Bioinform.
Sriganesh Srihari, Venkatesh Raman, Hon Wai Leong, Mark A. Ragan
2014 J jnl
Extracting reaction networks from databases-opening Pandora's box.
Briefings Bioinform.
Liam G. Fearnley, Melissa J. Davis, Mark A. Ragan, Lars Keld Nielsen
2014 J jnl
Supervised, semi-supervised and unsupervised inference of gene regulatory networks.
Briefings Bioinform.
Stefan Maetschke, Piyush B. Madhamshettiwar, Melissa J. Davis, Mark A. Ragan
2014 — conf
Towards a Large Integrated Model of Signal Transduction and Gene Regulation Events in Mammalian Cells.
BIOINFORMATICS
Liam G. Fearnley, Mark A. Ragan, Lars Keld Nielsen
2013 J jnl
Clustering evolving proteins into homologous families.
BMC Bioinform.
Cheong Xin Chan, Maisarah Mahbob, Mark A. Ragan
2013 J jnl
Computing Pathways to Systems Biology: Key Contributions of Computational Methods in Pathway Identification
CoRR
Sriganesh Srihari, Mark A. Ragan
2013 J jnl
RMaNI: Regulatory Module Network Inference framework.
BMC Bioinform.
Piyush B. Madhamshettiwar, Stefan Maetschke, Melissa J. Davis, Mark A. Ragan
2013 J jnl
Systematic tracking of dysregulated modules identifies novel genes in cancer.
Bioinform.
Sriganesh Srihari, Mark A. Ragan
2012 J jnl
Automatic selection of reference taxa for protein-protein interaction prediction with phylogenetic profiling.
Bioinform.
Martin Simonsen, Stefan Maetschke, Mark A. Ragan
2012 J jnl
Gene Ontology-driven inference of protein-protein interactions using inducers.
Bioinform.
Stefan Maetschke, Martin Simonsen, Melissa J. Davis, Mark A. Ragan
2012 J jnl
mCOPA: analysis of heterogeneous features in cancer expression data.
J. Clin. Bioinform.
Chenwei Wang, Alperen Taciroglu, Stefan Maetschke, Colleen C. Nelson, Mark A. Ragan, Melissa J. Davis
2011 J jnl
Quadratic Kernelization for Convex Recoloring of Trees.
Algorithmica
Hans L. Bodlaender, Michael R. Fellows, Michael A. Langston, Mark A. Ragan, Frances A. Rosamond, Mark Weyer
2011 J jnl
Quantitative Prediction of miRNA-mRNA Interaction Based on Equilibrium Concentrations.
PLoS Comput. Biol.
Chikako Ragan, Michael Zuker, Mark A. Ragan
2010 J jnl
A Semantic Web Ontology for Small Molecules and Their Biological Targets.
J. Chem. Inf. Model.
Joo-Young Choi, Melissa J. Davis, Andrew F. Newman, Mark A. Ragan
2010 J jnl
A visual framework for sequence analysis using
Bioinform.
Stefan Maetschke, Karin S. Kassahn, Jasmyn A. Dunn, Siew-Ping Han, Eva Z. Curley, Katryn J. Stacey, Mark A. Ragan
2010 J jnl
Automatic, context-specific generation of Gene Ontology slims.
BMC Bioinform.
Melissa J. Davis, Muhammad Shoaib B. Sehgal, Mark A. Ragan
2009 J jnl
A Novel Heuristic for Local Multiple Alignment of Interspersed DNA Repeats.
IEEE ACM Trans. Comput. Biol. Bioinform.
Todd J. Treangen, Aaron E. Darling, Guillaume Achaz, Mark A. Ragan, Xavier Messeguer, Eduardo P. C. Rocha
2009 J jnl
Illoura
Bioinform.
Tim McComb, Oliver Cairncross, Andrew B. Noske, David L. A. Wood, Brad J. Marsh, Mark A. Ragan
2009 J jnl
Protein-protein interaction as a predictor of subcellular location.
BMC Syst. Biol.
Chang Shin, Simon Wong, Melissa J. Davis, Mark A. Ragan
2009 J jnl
Seevolution: visualizing chromosome evolution.
Bioinform.
Andrés Esteban-Marcos, Aaron E. Darling, Mark A. Ragan
2008 — conf
Gapped Extension for Local Multiple Alignment of Interspersed DNA Repeats.
ISBRA
Todd J. Treangen, Aaron E. Darling, Mark A. Ragan, Xavier Messeguer
2008 J jnl
Genome-Scale Computational Biology and Bioinformatics in Australia.
PLoS Comput. Biol.
Mark A. Ragan, Tim Littlejohn, Bruce Ross
2008 B conf
Integrating Hierarchical Controlled Vocabularies With OWL Ontology: A Case Study from the Domain of Molecular Interactions.
APBC
Melissa J. Davis, Andrew F. Newman, Imran Khan, Jane Hunter, Mark A. Ragan
2008 A conf
MACHOS: Markov clusters of homologous subsequences.
ISMB
Simon Wong, Mark A. Ragan
2008 — conf
The Visible Cell Project: Changing the Way We Think about Cells.
ISPAN
Mark A. Ragan, Brad J. Marsh
2007 J jnl
A two-phase strategy for detecting recombination in nucleotide sequences.
South Afr. Comput. J.
Cheong Xin Chan, Robert G. Beiko, Mark A. Ragan
2007 Misc conf
Connected Coloring Completion for General Graphs: Algorithms and Complexity.
COCOON
Benny Chor, Michael R. Fellows, Mark A. Ragan, Igor Razgon, Frances A. Rosamond, Sagi Snir
2007 Misc conf
Quadratic Kernelization for Convex Recoloring of Trees.
COCOON
Hans L. Bodlaender, Michael R. Fellows, Michael A. Langston, Mark A. Ragan, Frances A. Rosamond, Mark Weyer
2006 J jnl
Advanced computing for systems biology.
Briefings Bioinform.
Kevin Burrage, Lindsay Hood, Mark A. Ragan
2006 B conf
Automating the Search for Lateral Gene Transfer.
APBC
Mark A. Ragan
2006 J jnl
Detecting recombination in evolving nucleotide sequences.
BMC Bioinform.
Cheong Xin Chan, Robert G. Beiko, Mark A. Ragan
2006 — conf
Kernelization for Convex Recoloring.
ACiD
Hans L. Bodlaender, Michael R. Fellows, Michael A. Langston, Mark A. Ragan, Frances A. Rosamond, Mark Weyer
2006 J jnl
The use of concept maps during knowledge elicitation in ontology development processes - the nutrigenomics use case.
BMC Bioinform.
Alexander García Castro, Philippe Rocca-Serra, Robert Stevens, Chris F. Taylor, Karim Nashar, Mark A. Ragan, Susanna-Assunta Sansone
2005 J jnl
A word-oriented approach to alignment validation.
Bioinform.
Robert G. Beiko, Cheong Xin Chan, Mark A. Ragan
2005 J jnl
Workflows in bioinformatics: meta-analysis and prototype implementation of a workflow generator.
BMC Bioinform.
Alexander García Castro, Samuel Thoraval, Leyla J. García, Mark A. Ragan
2004 J jnl
A hybrid clustering approach to recognition of protein families in 114 microbial genomes.
BMC Bioinform.
Timothy J. Harlow, J. Peter Gogarten, Mark A. Ragan
1990 J jnl
Nucleotide sequences of 18S ribosomal RNA genes from the red algae Gracilaria tikvahiae McLachlan, Gracilaria verrucosa (Hudson) Papenfuss and Gracilariopsis sp.
Nucleic Acids Res.
Carolyn J. Bird, Ellen L. Rice, Colleen A. Murphy, Qing Yan Liu, Mark A. Ragan