Electrochemical DNA (E-DNA) sensors have attracted large attention, as they play an important role in early diagnosis of infectious diseases. Herein, we have rationally utilized the ultra-high charge-transfer efficiency of gold nanoparticles (Au) and biocompatibility associated with magnetic nanoparticles (Fe3O4) to develop detection platform for chikungunya virus DNA (CHIKV). The use of electrochemical paper analytical device (ePADs) further adds on to the attractive attributes of the sensor, because paper being an inexpensive substrate could help in mass production of the platform easily. Therefore, a simple, sensitive and inexpensive platform has been developed for the detection of target DNA of CHIKV. The detection limit of the present sensor was 0.1 nM with a linear range from 0.1 nM to 100 mu M. The use of paper makes it too economic for mass production and has the capability to convert for commercial use.