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The Galaxy-class starships, which operated in the mid-to-late 24th century, had a spin reversal system that generated antiprotons. This generative process occurred on deck 42 of these ships. The location of this generation was labeled on the schematic of the secondary hull of the USS Yamato in 2365. (TNG: "Contagion", okudagram)
The Delta Rana warship, created by the Douwd Kevin Uxbridge, used jacketed beams of antiprotons and positrons as its main weapon. It fired beams with the equivalent firepower of forty megawatts, and later four hundred gigawatts, at the USS Enterprise-D. (TNG: "The Survivors")
In 2372, The Doctor on the USS Voyager used bursts of antiprotons from the warp core to reverse the effects of hyper-evolution on Tom Paris and Kathryn Janeway, by destroying the mutated segments of DNA. (VOY: "Threshold")
The use of a cloaking device often left residual antiprotons that could expose the ship's presence. The Reman warbird Scimitar was equipped with an advanced cloaking device that left no such trace. (Star Trek Nemesis)