Liao, B.-Y., N. M. Scott, and J. Zhang. 2006. Impacts of gene essentiality, expression pattern, and gene compactness on the evolutionary rate of mammalian proteins. Mol Biol Evol 23 : 2072-2080
Supplementary Materials for Wang, Z & J. Zhang. 2007. In search of the biological significance of modular structures in protein networks. PLoS Comput Biol
Additional Supplementary Materials for He, X., W. Qian, Z. Wang, Y. Li, and J. Zhang. 2010. Prevalent positive epistasis in Escherichia coli and Saccharomyces cerevisiae metabolic networks. Nat Genet, 42 : 272-276.
Additional Supplementary Materials for Qian, W., D. Ma, C. Xiao, Z. Wang, and J. Zhang. The genomic landscape of antagonistic pleiotropy in yeast. Cell Rep. 2 : 1399-1410
Additional Supplementary Materials for J. Xu, and J. Zhang. 2014. Why human disease-associated residues appear as the wild-type in other species: genome-scale structural evidence for the compensation hypothesis. Mol Biol Evol. 31 : 1787-1792
Additional Supplementary Materials for J-R. Yang, and J. Zhang. 2015. Human long noncoding RNAs are substantially less folded than messenger RNAs. Mol Biol Evol. 32 : 970-977.
Additional Supplementary Materials for X. Wei and J. Zhang. 2015. A simple method for estimating the strength of natural selection on overlapping genes. Genome Biol Evol. 7 : 381-390.
Additional Supplementary Materials for J. Zhang and J.-R. Yang. 2015. Determinants of the rate of protein sequence evolution. Nat Rev Genet. 16 : 409-420.
Additional Supplementary Materials for J. Xu and J. Zhang. 2016. Impact of structure space continuity on protein fold classification. Sci Rep. 6 : 23263.
Additional Supplementary Materials for J. Xu and J. Zhang. 2016. Are human translated pseudogenes functional? Mol Biol Evol. 33 : 755-760.
Erratum for Moyers, B. A., and J. Zhang. 2015. Phylostratigraphic bias creates spurious patterns of genome evolution. Mol Biol Evol 32 : 258-267.
Additional Supplementary Materials for Z. Zou and J. Zhang. 2017. Gene tree discordance does not explain away the temporal decline of convergence in mammalian protein sequence evolution. Mol Biol Evol. in review.