Derek A. Ruths

According to our database, Derek A. Ruths authored at least 13 papers between 2000 and 2009.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2009

GS²: an efficiently computable measure of GO-based similarity of gene sets.

Troy A. Ruths, Derek A. Ruths, Luay Nakhleh

Bioinform., 2009

2008

The Signaling Petri Net-Based Simulator: A Non-Parametric Strategy for Characterizing the Dynamics of Cell-Specific Signaling Networks.

Derek A. Ruths, Melissa Muller, Jen-Te Tseng, Luay Nakhleh, Prahlad T. Ram

PLoS Comput. Biol., 2008

Rapidly exploring structural and dynamic properties of signaling networks using PathwayOracle.

Derek A. Ruths, Luay Nakhleh, Prahlad T. Ram

BMC Syst. Biol., 2008

PhyloNet: a software package for analyzing and reconstructing reticulate evolutionary relationships.

Cuong Than, Derek A. Ruths, Luay Nakhleh

BMC Bioinform., 2008

2007

Confounding Factors in HGT Detection: Statistical Error, Coalescent Effects, and Multiple Solutions.

Cuong Than, Derek A. Ruths, Hideki Innan, Luay Nakhleh

J. Comput. Biol., 2007

2006

Hypothesis Generation in Signaling Networks.

Derek A. Ruths, Luay Nakhleh, M. Sriram Iyengar, Shrikanth A. G. Reddy, Prahlad T. Ram

J. Comput. Biol., 2006

Identifiability Issues in Phylogeny-Based Detection of Horizontal Gene Transfer.

Cuong Than, Derek A. Ruths, Hideki Innan, Luay Nakhleh

Proceedings of the Comparative Genomics, 2006

De Novo Signaling Pathway Predictions Based on Protein-Protein Interaction, Targeted Therapy and Protein Microarray Analysis.

Derek A. Ruths, Jen-Te Tseng, Luay Nakhleh, Prahlad T. Ram

Proceedings of the Systems Biology and Computational Proteomics, 2006

Techniques for Assessing Phylogenetic Branch Support: A Performance Study.

Derek A. Ruths, Luay Nakhleh

Proceedings of 4th Asia-Pacific Bioinformatics Conference. 13-16 February 2006, 2006

RECOMP: A Parsimony-Based Method for Detecting Recombination.

Derek A. Ruths, Luay Nakhleh

Proceedings of 4th Asia-Pacific Bioinformatics Conference. 13-16 February 2006, 2006

2005

Recombination and phylogeny: effects and detection.

Derek A. Ruths, Luay Nakhleh

Int. J. Bioinform. Res. Appl., 2005

RIATA-HGT: A Fast and Accurate Heuristic for Reconstructing Horizontal Gene Transfer.

Luay Nakhleh, Derek A. Ruths, Li-San Wang

Proceedings of the Computing and Combinatorics, 11th Annual International Conference, 2005

2000

Arbor 3D: an interactive environment for examining phylogenetic and taxonomic trees in multiple dimensions.

Derek A. Ruths, Edward S. Chen, Leland Ellis

Bioinform., 2000