Additional data file 7.The co-expression similarity for genes i, j, encoding a pair of interacting proteins is alternatively measured as the adjacency a_{ij}(β) = (0.5 + 0.5 η (i, j))^{β}, where η (i, j) is the expression correlation for the gene pair i, j and β is a soft threshold [46]. Similarly, the structure vulnerability is alternatively defined as ν_{i, j}(β) = ν (i, j)^{β}, where ν (i, j) is the maximum ν-value for the interacting pair. (a, b) (ν (β)-a(β)) correlations for yeast for exponents β = 0.5 (a) and 10 (b). The adjacencies for β = 1 correspond simply to a linear rescaling of η already correlated with ν in Figure 4. (c, d) The same as (a, b) but for human. Notice that high exponents (β > 1) tend to amplify differences in co-expression, yielding lower correlation coefficients (R^{2 }in (ν (β)-a(β)) plots). Format: EPS Size: 4.8MB Download file Chen et al. Genome Biology 2008 9:R107 doi:10.1186/gb-2008-9-7-r107 |