Discrepant analysis is a widely used technique that attempts to provid
e estimates of sensitivity and specificity in the presence of an imper
fect gold-standard. This technique has been applied by many researcher
s to estimate the sensitivity and specificity of DNA-amplification tes
ts for Chlamydia trachomatis such as the plasmid-based ligase chain-re
action and polymerase chain-reaction tests. However, the sensitivity a
nd specificity estimates obtained by discrepant analysis are upwardly
biased, and this bias remains even when a perfect test is used to reso
lve the discrepant results. This technique should not be adopted for e
valuating the performance of a diagnostic test.