Table 3.

Transcriptional response to clinical inactivity.

Untreated versus control	Untreated versus inactive
Increased (n = 203)	Improved (n = 39)
	Unchanged (n = 164)
Decreased (n = 98)	Improved (n = 5)
	Unchanged (n = 93)
Not DE (n = 173)	Increased (n = 121)
	Decreased (n = 52)

Data are shown for two different contrasts: untreated JDM PBMCs versus controls, and untreated JDM versus inactive JDM. In the untreated JDM versus control comparison, there are three possibilities: (1) increased in untreated JDM, (2) decreased in untreated JDM, or (3) not differentially expressed. We assessed each of these categories to determine whether they changed with inactive disease. This is shown in the second column. Some genes improved toward a control-like state when inactive. Another set of genes that were not differentially expressed in the untreated versus control comparison was changed when inactive. Overall, most genes that were either increased or decreased when untreated did not improve when patients were inactive.

DE differentially expressed, JDM juvenile dermatomyositis, PBMCs peripheral blood mononuclear cells.