USB powered RT-qPCR module

Difficulty level: Advanced (see disclaimer at end).

I've listed the parts and approaches that I've used, and my results so far. I think the project is at the point where others might find it worth considering for more advanced setups. It grew out of an Instructable: http://www.instructables.com/id/Coffee-Cup-PCR-Thermocycler-costing-under-350/
You might also look at the BioHacking explanation webpage at http://en.wikipedia.org/wiki/Biohacking and the brilliant work at Open PCR http://openpcr.org/

The idea is to explore a 3D printed enclosure for this module. The possibilities seem almost limitless. I can print new designs for enclosures as fast as I can CAD them up. Hope this information helps in your approaches.
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This project seeks to configure a 3D-printed, USB powered, remotely accessed, disposable, low cost - Real Time Quantitative PCR (qPCR or RTPCR) module.

Background:

Polymerase chain reaction (PCR) has revolutionized broad areas of forensics, m