Question: Best way to export HD footage to 'KEY' in After Effects (AVC-HD)

So I have 15 mins of footage in premiere that i'm going to edit down to about 2 mins. This will then need to be keyed out (green screen) so I figure I need to bring it all into AE and use the KeyLight plugin. Should I export the whole project or use the  'replace with after effect composition' by 'right-clicking' on each clip?
If i export the project (using adobe media encoder) what is a good format to export to because AVCHD is not an option.

Should I .....use the  'replace with after effect composition' by 'right-clicking' on each clip?
That's what I would do.
If i export the project (using adobe media encoder) what is a good format to export to because AVCHD is not an option.
Something lossless like:
Lagarith Lossless Video Codec
http://lags.leetcode.net/codec.html
or
Ut Video Codec Suite
http://www.videohelp.com/tools/Ut-Video-Codec-Suite

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