They have completely revamped the 2007 Yamaha R1,redesigning the engine, suspension, and chassis to make for a very new mean looking motorcycle. The main change for this machine is the throttle-by-wire which was first introduced into the 2006 R6. Which seems to have slightly tamed the R1’s engine, some people say that it takes away from the raw power of the machine, but I think this makes the R1 more ridable and you have more usable power. You can come out of corners faster with this type of throttle to the point it might make you over confident, and it will feel better around corners and more stable when flipping left to right because the pivot position of the swingarm is 3mm higher then before. All these tweaks and changes have made this into one great piece of machinary.
Link: Yamaha