The better measure, IMO, is how many penalties a team takes relative to their opponents. It might very well be a game strategy for teams to 'play aggressive against Wisconsin', meaning Wisconsin will find themselves playing in 'high penalty' games.
So, in conference games with the same sets of conference refs (regular season, because that's what the WCHA page gives me; adding in playoffs even things out completely) Wisconsin has had 112 penalties called on them, and their opponents have had 108 called on them (in the playoffs so far, Badger opponents have taken three more penalties than Wisconsin has taken)
The Gophers 86 penalties both called on them and their opponents.
Duluth 86 called on them, 95 on their opponents.
North Dakota, on the other hand: 115 called on them, but only 87 on their opponents.
Comparing Wisconsin to North Dakota with those numbers in mind is silly, IMO.