Recent rapid outbreaks of pandemics have highlighted the need for quick and precise identification of pathogens. Miniaturized and integrated microfluidic systems are promising tools that transform an elaborate laboratory process into a small-scale platform. The popular diagnostic method currently used involves polymerase chain reaction (PCR) which require longer duration for the detection of microorganisms. This aroused the interest of researchers to mimic PCR in a microfluidic platform which reduces the detection time to a few minutes allowing it to be used as point of care (POC) tests. The precise temperature control is the most challenging task for the successful implementation of the test. PCR involves three complex thermal cycling including denaturation (≈ 95 °C), annealing (≈ 50–65 °C), and extension (≈ 72 °C), for nucleic acid amplification. This calls for an efficient temperature control system for maintaining constant temperature. Passive thermal control methods such as Phase Changing Material (PCM) help to minimize the electronic control requirements. Experimental implementation of 2-cycle PCR procedure on a microfluidic platform with PCM for maintaining a constant annealing temperature is presented here.