The testing done in the diagnostic immunology laboratory contributes t
o the management of patients with systemic autoimmune diseases. In the
se diseases the interaction between environmental factors and a geneti
cally dysregulated immune system produces a continually variable level
of disease activity. Improved techniques now allow the clinical scien
tist to assess the integrity of a patient's immune system and to ascer
tain qualitative or quantitative disturbances in its activation and ex
pression. Cellular and humoral immunity may become independently activ
ated or dysfunctional in certain disease processes, although the gener
ation of amplifying proteins may result in the full clinical expressio
n of immunity and autoimmune inflammation. Autoimmune diseases can, in
part, be characterized according to the activation pattern of gene ex
pression encoding the amplifying and proinflammatory cytokines. Modern
therapy is increasingly aimed at determining ways to influence discre
te elements of the immune apparatus; therefore, it is important to ide
ntify and characterize the patterns of expression of the immune system
mediators serially in chronic autoimmune disease states. Newer diagno
stic procedures stemming from observations in basic and clinical resea
rch are expanding the useful database on patients, but they must be ca
refully evaluated to prove their applicability and efficacy. Because b
lood samples are the best available specimens for testing, one must co
nsider all the possible sampling problems and pitfalls of using result
s from peripheral blood to judge changes in function of the lymphoid s
ystem.