The numbers represent log (base 2) fold change. P values were calculated independently for this gene group as described in “Microarray data analysis” in “Methods.” “No shifts” means that no statistically significant shifts were observed within any of the comparisons for the probe set(s) in question. The comparison abbreviations Tol.Naive, Imm.Naive, and Rag.Naive have the same meaning as in Figure 2. “No. of probe sets” indicates how many probe sets were present on the array for each gene listed. “Anergy correlation” indicates the shift in gene expression that has been observed in anergic cells. — indicates the gene has not been reported to shift in expression within anergic cells despite its requirement for the anergic phenotype.

Statistically significant change in gene expression.

The shift was significantly greater in Tol.Naive relative to either Imm.Naive or Rag.Naive (ie, it exhibited statistically significant up-regulation in both the Tol.Imm and Tol.Rag comparisons).

The genes listed have been shown to be required for anergy induction in various models, with findings established through knockout, knockdown, or pharmacologic inhibition studies. Most of the genes are also sufficient to induce anergy (ie, their overexpression promotes an anergic phenotype). It should be noted that most of these studies were done in CD4⁺ T cells and many used in vitro anergy models.