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Derek A. Ruths
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2000 – 2009
- 2009
- [j8]Troy A. Ruths, Derek A. Ruths, Luay Nakhleh:
GS2: an efficiently computable measure of GO-based similarity of gene sets. Bioinform. 25(9): 1178-1184 (2009) - 2008
- [j7]Cuong Than, Derek A. Ruths, Luay Nakhleh:
PhyloNet: a software package for analyzing and reconstructing reticulate evolutionary relationships. BMC Bioinform. 9 (2008) - [j6]Derek A. Ruths, Luay Nakhleh, Prahlad T. Ram
:
Rapidly exploring structural and dynamic properties of signaling networks using PathwayOracle. BMC Syst. Biol. 2: 76 (2008) - [j5]Derek A. Ruths, Melissa Muller, Jen-Te Tseng, Luay Nakhleh, Prahlad T. Ram
The Signaling Petri Net-Based Simulator: A Non-Parametric Strategy for Characterizing the Dynamics of Cell-Specific Signaling Networks. PLoS Comput. Biol. 4(2) (2008) - 2007
- [j4]Cuong Than, Derek A. Ruths, Hideki Innan
Confounding Factors in HGT Detection: Statistical Error, Coalescent Effects, and Multiple Solutions. J. Comput. Biol. 14(4): 517-535 (2007) - 2006
- [j3]Derek A. Ruths, Luay Nakhleh, M. Sriram Iyengar, Shrikanth A. G. Reddy, Prahlad T. Ram
Hypothesis Generation in Signaling Networks. J. Comput. Biol. 13(9): 1546-1557 (2006) - [c5]Derek A. Ruths, Luay Nakhleh:
RECOMP: A Parsimony-Based Method for Detecting Recombination. APBC 2006: 59-68 - [c4]Derek A. Ruths, Luay Nakhleh:
Techniques for Assessing Phylogenetic Branch Support: A Performance Study. APBC 2006: 187-196 - [c3]Derek A. Ruths, Jen-Te Tseng, Luay Nakhleh, Prahlad T. Ram
De Novo Signaling Pathway Predictions Based on Protein-Protein Interaction, Targeted Therapy and Protein Microarray Analysis. Systems Biology and Computational Proteomics 2006: 108-118 - [c2]Cuong Than, Derek A. Ruths, Hideki Innan, Luay Nakhleh:
Identifiability Issues in Phylogeny-Based Detection of Horizontal Gene Transfer. Comparative Genomics 2006: 215-229 - 2005
- [j2]Derek A. Ruths, Luay Nakhleh:
Recombination and phylogeny: effects and detection. Int. J. Bioinform. Res. Appl. 1(2): 202-212 (2005) - [c1]Luay Nakhleh, Derek A. Ruths, Li-San Wang:
RIATA-HGT: A Fast and Accurate Heuristic for Reconstructing Horizontal Gene Transfer. COCOON 2005: 84-93 - 2000
- [j1]Derek A. Ruths, Edward S. Chen, Leland Ellis:
Arbor 3D: an interactive environment for examining phylogenetic and taxonomic trees in multiple dimensions. Bioinform. 16(11): 1003-1009 (2000)
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