The Tigers boss felt Gareth Barry should have been flagged offside for the first goal - credited to Kevin Mirallas although there was a hint of a touch from the England midfielder - and then sent off for a "horror" tackle on Sone Aluko.
To add to the insult Barry had already escaped with a high tackle on Danny Graham which resulted in the Hull striker being carried off on a stretcher with a knee injury.
Graham's replacement Yannick Sagbo equalised on the half-hour only for Steven Pienaar to return from a six-week absence with a hamstring injury to score with his first touch 30 seconds after coming off the bench.
"There is no-one more of an admirer than I of Gareth Barry, he is a really great player, but he has nudged the first (goal) and changed the course of the ball standing a yard offside," said Bruce.
"We've had one or two go our way but the big ones today have not gone our way.
"The linesman has got to flag - he (Barry) is a yard offside and he touches it, I am 100 per cent certain of it and he runs away like he's touched it.
"I'm not saying it's the referee's fault but surely the linesman has to flag for offside even if he hasn't touched it as he has stepped over it so he has to be interfering with play."
Turning to referee Neil Swarbrick's leniancy towards Barry, Bruce added: "It was bad enough the challenge on Danny Graham but when you see the one on Aluko, it is the stuff of horror.
"Danny has a knee injury and we're not so sure how it is. That challenge is worthy of probably a yellow card and the challenge on Aluko is horrific.
"He is lucky to get away with it as it's over the ball, just below his knee - a horror challenge."