Victory came at a cost for Moore, who lost Akpa Akpro to a suspected broken rib in the second half.
The jet-heeled striker was taken to hospital for an X-ray after landing awkwardly when he flew into an aerial challenge.
"It's always the way that the players who get injured are your best ones," Moore joked.
"He's just been getting his form back and it's no coincidence that we have been winning games."
Akpa Akpro's pace alongside David Amoo caused the Londoners problems on the break, but it was two errors that handed Tranmere the points.
Andy Robinson gave the visitors the lead just before the break, converting from the penalty spot after Harlee Dean had fouled David Amoo in the area.
Brentford hit back when Dean redeemed himself, getting ahead of his marker to glance home Jake Bidwell's near post free-kick. But Adam McGurk won it when he skipped past two defenders to fire in a low angled drive for the winner in the 66th minute.
Moore insisted the better side won and felt Dean was lucky to stay on the pitch after the penalty was award.
He said: "We deserved the win, but I was surprised the ref brought out the yellow quickly and not the red card. That was our best team performance of the season against a side who I'm sure won't be too far off the automatic promotion places."
