The blood flow quantification is of great importance in the diagnosis of many diseases. The current blood flow quantification methods are mainly based on the Kety’s method, which highly replies on the practically unmeasurable arterial input function (AIF). To void using the AIF as an input, we propose quantitative transport mapping (QTM) that quantitatively models blood flow in tissue according to the underlying biophysics of the transport equation. The inverse problem of QTM is to reconstruct the velocity field of the blood transportation using the time-resolved 4D tracer concentration data. As an example, with the approximation of kidney microvascular network, the renal blood flow (RBF) can be quantified by QTM.