I would strongly urge you to keep the fans still running, without any fans you wont have airflow which will cause overheating once your computer is put into load such as gaming. The fans are used to push warm air out the case, your case temperatures are low right now because the intake fans are bringing in cold air from outside into the case. Without the intake fans expect higher temperatures.
Anyways back to the main question, yes I do keep my fans still running in the winter but I do keep them a bit lowered with a fan controller. You may be fine if you do take out a intake fan for now if it really matters.
I think I'll just grab a fan controller. I should have picked one up a long time ago. These 120's move a LOT of air but are loud. Remind of the old 80mm Delta's we used to use to cool our Athlon XP-M's
Haha, I think I still have a delta fan somewhere that does 4000 rpm or something like that. Sounds like a jet taking off Anyways about the fan controllers I posted try and go for the 1st one, the 2nd one has mixed reviews and some people have complained of it going on fire. Don't want your build to be at risk from it so avoid it.