Color noise in highlights in 16 bit comp (DSLR footage)

Hi,
I'm trying out a workflow to get the most out of my DSLR footage and it results in some weird color noise (not sure what to call it) as shown in the picture.
Here's the workflow I'm using: https://vimeo.com/39979623
Basically, I import the DSLR footage into a 16 bit project, apply Red Giant Denoiser and dither (noise). At this stage the footage looks fine.
I then render using Avid DNxHD as video codec and change colors to trillions. If I play that exported footage in VLC, there is no noise.
I re-import that footage into AE (same or new project in 16 bit) and now the highlights have gone weird and it also persists when I render the comp to h264. If I change it to a 8 bit project, that problem disappears.
Could anyone explain what's happening?
Thanks!
I'm using CS6.

Apologies
After Effects CS6 11.0.4.2
Windows 7 Professional, 64-bit
Intel(R) Core(TM) i7-3930K CPU @ 3.20GHz, 3201 Mhz, 6 Core(s), 12 Logical
16GB RAM
GeForce GTX 680 (driver version 347.52)
I have installed NVIDIA GPU Computing Toolkit 6.0 but I think there is a new version - I have no idea if that has anything to do with this but I'll update it tomorrow in any case.

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