The coherence function has been used in transfer function analysis of dynamic cerebral autoregulation to assess the statistical significance of spectral estimates of gain and phase frequency response. Interpretation of the coherence function and choice of confidence limits has not taken into account the intrinsic nonlinearity represented by changes in cerebrovascular resistance due to vasomotor activity. For small spontaneous changes in arterial blood pressure (ABP), the relationship between ABP and cerebral blood flow velocity (CBFV) can be linearized, showing that corresponding changes in cerebrovascular resistance should be included as a second input variable. In this case, the standard univariate coherence function needs to be replaced by the multiple coherence, which takes into account the contribution of both inputs to explain CBFV variability. With the use of two different indicators of cerebrovascular resistance index [CVRI ϭ ABP/CBFV and the resistance-area product (RAP)], multiple coherences were calculated for 42 healthy control subjects, aged 20 to 40 yr (28 Ϯ 4.6 yr, mean Ϯ SD), at rest in the supine position. CBFV was measured in both middle cerebral arteries, and ABP was recorded noninvasively by finger photoplethysmography. Results for the ABP ϩ RAP inputs show that the multiple coherence of CBFV for frequencies Ͻ0.05 Hz is significantly higher than the corresponding values obtained for univariate coherence (P Ͻ 10 Ϫ5 ). Corresponding results for the ABP ϩ CVRI inputs confirm the principle of multiple coherence but are less useful due to the interdependence between CVRI, ABP, and CBFV. The main conclusion is that values of univariate coherence between ABP and CBFV should not be used to reject spectral estimates of gain and phase, derived from small fluctuations in ABP, because the true explained power of CBFV in healthy subjects is much higher than what has been usually predicted by the univariate coherence functions. cerebral autoregulation; coherence function; transfer function analysis; multivariate modeling; transcranial Doppler ultrasound TRANSFER FUNCTION ANALYSIS (TFA) is a useful technique to study physiological systems whose properties are characterized by linear or quasi-linear dynamic relationships between two or more physiological time series (6, 36). One area that has benefited from this approach is the study of dynamic cerebral blood flow (CBF) autoregulation in humans (27,28,40). Aaslid et al. (2) have extended the classical concept of "static" autoregulation (20) by showing that a sudden change in arterial blood pressure (ABP) leads to a relatively fast recovery of CBF to its original level. This transient response of the autoregulatory mechanisms is what is now termed "dynamic" cerebral autoregulation (CA) (2). TFA of dynamic CA was initially proposed by Giller (13), who modeled CA as an input-output relationship between beat-to-beat values of ABP and CBF, as estimated by transcranial Doppler ultrasound (TCD) recordings of CBF velocity (CBFV). The many contributions that followed...