The purpose of this work was to compute blood input function from the inferior vena cava (IVC) with partial volume (PV) corrections and compare to that obtained from the left ventricular blood pool (LVBP) with spill-over (SP) and PV corrections. These were then used to compute and validate rates of myocardial 2-deoxy-2-[18F]fluoro-D-glucose (FDG) uptake (Ki) from dynamic positron emission tomography (PET) images of rat hearts in vivo in comparison to that obtained from invasive arterial blood sampling. Whole body 60 min dynamic FDG PET/CT imaging of n = 8 control Wistar Kyoto (WKY) rats were performed using Albira trimodal PET/CT/SPECT scanner. Image derived blood input function (IDIF) obtained from IVC corrected for PV averaging (IVC-PV) and IDIF from the left ventricular blood pool (LVBP) with SP and PV corrections (LVBP-SP-PV) were computed. Next, computed Ki (indirect comparison) in a 5-parameter (using IVC-PV) and a 15-parameter (using LVBP-SP-PV) 3-compartment models in WKY rat hearts in vivo were compared to that obtained using arterial blood sampling reported in literature in control Spraque Dawley (SD) rats. Using IVC-PV in a three-compartment five-parameter model resulted in a ~46% deviation in the mean computed Ki compared to that obtained with LVBP-SP-PV in a three-compartment 15-parameter model with a ~57% deviation in the mean computed Ki. The mean computed Ki in WKY rat hearts using the above methods, however, did not differ significantly to that obtained from invasive arterial blood sampling in SD rat hearts (p = 0.91 for IVC-PV and p = 0.58 for LVBP-SP-PV). Hence, Ki obtained in WKY rat hearts with input curve from IVC (IVC-PV) in a dynamic FDG PET scan is comparatively more repetitive to that obtained from the LVBP (LVBP-SP-PV). Ki computed using both the methods, however, agree well with each other and that obtained using arterial blood sampling.