J.W. Brown, J.S. Rest, J. GarcÕa-Moreno, M.D. Sorenson MD, and D.P. Mindell. 2008. Strong mitochondrial DNA support for a Cretaceous origin of modern avian lineages. BMC Biology. 6:6.

J.S. Rest and D.P. Mindell. 2003. Retroids in Archaea: phylogeny and lateral origins. Molecular Biology and Evolution. 20: 1134-1142.

Qiu, Y.-L., L. Li, B. Wang, Z. Chen, V. Knoop, M. Groth-Malonek, O. Dombrovska, J. Lee, L. Kent, J.S. Rest, G. F. Estabrook, T. A. Hendry, D. W. Taylor, C. M. Testa, M. Ambros, B. Crandall-Stotler, R. J. Duff, M. Stech, W. Frey, D. Quandt, and C. C. Davis. 2006. The deepest divergences in land plants inferred from phylogenomic evidence. PNAS 103: 15511-15516.

Qiu, Y.-L., O. Dombrovska, J. H. Lee, L.B. Li, B. A. Whitlock, F. Bernasconi-Quadroni, J. S. Rest, C. C. Davis, T. Borsch, K. W. Hilu, S. S. Renner, D. E. Soltis, P. S. Soltis, M. J. Zanis, J. J. Cannone, R. R. Gutell, M. Powell, V. Savolainen, L. W. Chatrou, M. W. Chase. 2005. Phylogenetic analyses of basal angiosperms based on nine plastid, mitochondrial, and nuclear genes. International Journal of Plant Science. 166(5): 815-842

Xiankui S., J.M. Fontaine, J.S. Rest, E.A. Shelden, M.J. Welsh, and R. Benndorf. 2004. Interaction of human HSP22 (HSPB8) with other small heat shock proteins. Journal of Biological Chemistry. 279(4):2394-2402.

Mindell, D.P., J.S. Rest, and L.P. Villarreal. 2004. Viruses and the tree of life. In Cracraft, J. and M. J. Donoghue (eds.), Assembling the Tree of Life. Oxford University Press, New York. (Book Chapter).

Rest, J.S. and D.P. Mindell. 2003. SARS associated coronavirus has a recombinant polymerase and coronaviruses have a history of host shifting. Infection, Genetics and Evolution 3: 219-225.

Rest, J.S., J.C. Ast, C.C. Austin, P.J. Waddell, E.A. Tibbetts, J.M. Hay, and D.P. Mindell. 2003. Molecular systematics of Reptilia and the tuatara mitochondrial genome. Molecular Phylogenetics and Evolution. 29: 289-297.

Tucker, P.K. RM. Adkins, and J.S. Rest. 2003. Differential rates of evolution for the ZFY-related zinc finger genes, Zfy, Zfx and Zfa in the mouse genus Mus. Molecular Biology and Evolution. 20:999-1005.

Fontaine, J.M., J.S. Rest, M.J. Walsh and R. Benndorf. 2003. The sperm outer dense fiber protein is the 10th member of the superfamily of mammalian small stress proteins. Cell Stress and Chaperones 8:62-69.

Dimmic M.W., J.S. Rest, D.P. Mindell, and R. Goldstein. 2002. rtREV: An amino acid substitution matrix for inference of retrovirus and reverse transcriptase phylogeny. Journal of Molecular Evolution. 55: 65-73.

Liu Y, Shen Y, Rest J.S., Raymond PA, Zack DJ. 2001. Isolation and characterization of a zebrafish homologue of the cone rod homeobox gene. Investigative Ophthalmology and Visual Science. 42:481-7.

Meshnick SR, Hossler PA, Enger KS, Kazanjian P, Rest J.S., Mindell D, Li BZ, Lee CH, Nimri LF, Carter JL, Beard CB, Huang L. 2001 Distribution of DHPS mutations among ITS subtypes of P-carinii f. sp hominis. Journal of Eukaryotic Microbiology 126S-128S Suppl. S