My Passat Misfires on 3 out of 4 cylinders. 2, 3, and 4. I don't know what to do

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I have replaced the ignition coils, spark plugs, and the air filter. It was running fantastic (engine light remained on) until I accelerated quickly. I toke it to my local auto-zone, where they plug in the handheld computer and it came up with 9 codes. 3 were for the misfires, one relating the mass air flow sensor. The problem seems to be worse after 2,000 RPM and gets slightly better if above 3,000. But when I come to a stop the car will jerk back and forth. And be visibly shaking.