The Age old Question.

Steady flow of both, intake cool air which would be away from the heat generating components and use it to cool the components then exhaust the heat it produces. There may be some exceptions depending on the case.
 
general guide goes as

front fans go for intake of cool air

top of the case exhaust of hot air

bottom can be either or just make sure you have clearance(good idea for intake to flow up heat and out by top fans)

back again preference most go for exhaust though
 
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