1. W.S. Hlavacek, A. Redondo, H. Metzger, C. Wofsy & B. Goldstein (2001) Kinetic proofreading models for cell signaling predict ways to escape kinetic proofreading. Proc. Natl. Acad. Sci. USA 98, 7295-7300. [PubMed Abstract | Full Text | Manual]

2. J.R. Faeder, W.S. Hlavacek, I. Reischl, M.L. Blinov, H. Metzger, A. Redondo, C. Wofsy & B. Goldstein (2003) Investigation of early events in Fc&epsilonRI-mediated signaling using a detailed mathematical model. J. Immunol. 170, 3769-3781. [PubMed Abstract | Supplemental Material]

3. M.L. Blinov, J.R. Faeder, B. Goldstein & W.S. Hlavacek (2004) BioNetGen: software for rule-based modeling of signal transduction based on the interactions of molecular domains. Bioinformatics 20, 3289-3291. [doi:10.1093/bioinformatics/bth378 (open access) | PubMed Abstract | BioNetGen web site]

4. M.E. Wall, W.S. Hlavacek & M.A. Savageau (2004) Design of gene circuits: lessons from bacteria. Nat. Rev. Genet. 5, 34-42. [PubMed Abstract | Reprint (pdf) | Online Table S1 (pdf) | EcoTFs]

5. J.R. Faeder, M.L. Blinov, B. Goldstein & W.S. Hlavacek (2005) Rule-based modeling of biochemical networks. Complexity 10, 22-41 [BioNetGen input files]
   

6. M.L. Blinov, J.R. Faeder, B. Goldstein & W.S. Hlavacek (2006) A network model of early events in epidermal growth factor receptor signaling that accounts for combinatorial complexity. BioSystems 83, 136-151 [BioNetGen input files]

7. F. Mu, P.J. Unkefer, C.J. Unkefer & W.S. Hlavacek (2006) Prediction of oxidoreductase-catalyzed reactions based on atomic properties of metabolites. Bioinformatics 22, 3082-3088 [Supplemental Material]

8. F. Mu, R.F. Williams, C.J. Unkefer, P.J. Unkefer, J.R. Faeder & W.S. Hlavacek (in press) Carbon fate maps for metabolic reactions. Bioinformatics [Supplemental Material]