The federal minister was previously serving as a member of the commission's advisory board before being made its head.
Chaudhry will replace Nasim Nawaz, the secretary Ministry of Science and Technology.
Fawad Chaudhry's lunar calendar challenged in PHC
Earlier in the day, the science and technology minister paid a visit to the Comsats university's main campus in Islamabad, where he reiterated how the commission's work was paving the way for sustainable development in the country.
According to the ministry, Chaudhry's appointment would further enhance the vision of Comsats.
Pakistan's Nobel laureate Dr Abdus Salam conceived the idea of the Comsats. The university is collaborating with 27 countries in the field of science and technology.
Comsats aims to reduce the gap between the developed and developing world through useful applications of science and technology.
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