Distinguished　by　its　exceptional　sensitivity　and　specificity,　Polymerase　Chain　Reaction　(PCR)　is　a　pivotal　technology　for　pathogen　detection.　However,　traditional　PCR　instruments　that　employ　thermoelectric　cooling　(TEC)　are　often　constrained　by　cost,　efficiency,　and　performance　variability　resulting　from　the　fluctuations　in　ambient　temperature.　Here,　we　present　a　thermal　cycler　that　utilizes　electromagnetic　induction　heating　at　50　kHz　and　anti-freezing　water　cooling　with　a　velocity　of　0.06　m/s　to　facilitate　rapid　heating　and　cooling　of　the　PCR　reaction　chamber,　significantly　enhancing　heat　transfer　efficiency.　A　multi-physics　theoretical　heat　transfer　model,　developed　using　the　digital　twin　approach,　enables　precise　temperature　control　through　advanced　algorithms.　Experimental　results　reveal　average　heating　and　cooling　rates　of　14.92　°C/s　and　13.39　°C/s,　respectively,　significantly　exceeding　those　of　conventional　methods.　Compared　to　commercial　PCR　instruments,　the　proposed　system　further　optimizes　cost,　efficiency,　and　practicality.　Finally,　PCR　experiments　were　successfully　performed　using　cDNA　(Hepatitis　B　virus)　at　various　concentrations.　©　2024　by　the　authors.