The system assesses the endothelial function of a subject. Particularly, peripheral tissue perfusion measurements taken in a subject are compared to reference perfusion data and the comparison yields the assessment of endothelial function. The reference may be data indicative of peripheral tissue perfusion in a healthy person. Also, peripheral tissue perfusion measurements taken in a subject when perfusion is in an unperturbed state (the reference) can be compared to perfusion measurements taken promptly after a challenge to normal or unperturbed tissue perfusion of the subject.