In an interview on the BBC's website filmed at the Soccerex conference in Manchester where Vieira was representing charity Football Against Hunger, he said: "When United play at home they get some advantage that other teams don't get.
"I think when you go to United, Madrid, Barcelona, or Milan, when the referees referee these kind of games, it's always difficult to go against these kind of teams.
"This is the way it is."
City responded to the BBC's claims, saying Vieira had been misrepresented and that the reporter concerned had been banned from any media activity at the club.
"Patrick Vieira has expressed his disappointment and anger at what he feels is a serious and cynical misrepresentation of an interview he gave to the BBC," City said.
"I didn't watch the United game against Fulham and had not seen the incident to which the reporter referred," he said.
"That part of the interview was ignored and my comments were taken completely out of context."
Fergsuon responded by labelling City "desperate" recalling outcast Carlos Tevez after the Argentine's much-publicised falling out with manager Roberto Mancini following his refusal to warm up as substitute in the Champions League against Bayern Munich in September.
"Since the start of the season we've been the best team and played the best football," Vieira said.
"I believe the club deserves it. When you are first you have the advantage, [United] are favourites."
"We're glad Carlos is back. The quality of these kind of players will be really important at this stage of the season," he said. "The issue was between him and the club. The players were really pleased to see him back."
