Help with choosing PC set. Unlimited budget.

1. You need a motherboard.
Pick any lga2011 motherboard. There is no need for the most expensive.
Here is one: http://www.newegg.com/Product/Product.aspx?Item=N82E16813131801

2. You need ram.
You want documented ram compatibility. If you should ever have a problem, you want supported ram.
Otherwise, you risk a finger pointing battle between the ram and motherboard support sites, claiming "not my problem".
One place to check is your motherboards web site.
Look for the ram QVL list. It lists all of the ram kits that have been tested with that particular motherboard.
Sometimes the QVL list is not updated after the motherboard is released.
For more current info, go to a ram vendor's web site and access their ram selection configurator.
Enter your motherboard, and you will get a list of compatible ram kits.
While today's motherboards are more tolerant of different ram, it makes sense to buy ram that is known to work and is supported.
More ram is better. With your budget, buy the most your motherboard can handle. Ram speed is secondary.

3. If your apps can use the CUDA capabilities of Nvidia, then buy a Nvidia card with a fair number of CUDA cores.
For gaming on a single monitor, a GTX780ti is as good as it gets. Only if you will be gaming on triple monitors might dual cards be needed.
4. Your psu needs really are minimal. They are determined by the graphics card. A 650w psu can handle even the strongest of graphics cards. I might suggest the Seasonic X650
http://www.newegg.com/Product/Product.aspx?Item=N82E16817151088
Nothing wrong with 750w either.

5. A case is a personal thing. Lian-li makes very good quality cases.
If you want quiet, look at this list:
http://www.silentpcreview.com/article75-page5.html

6. I strongly urge you to use a SSD for the "C" drive. I will never again build without one.
It makes everything you do much quicker.
A one hour windows update takes 15 minutes. Files open instantly.
Look for a 240gb Samsung evo. Use your hard drive for storage and workfiles.

I know you said you budget unlimited, but the i7-4930K is supposed to perform within a few percent of the i7-4960X while costing $470 less.
As for case, you will want something fairly large. Maybe something like one of these two
http://www.newegg.com/Product/Product.aspx?Item=N82E16811139017
http://www.newegg.com/Product/Product.aspx?Item=N82E16811139009

Since you are going with Ivy bridge E, you will need an X79 motherboard, like this one http://www.newegg.com/Product/Product.aspx?Item=N82E16813132047

RAM, you want to get a 4 channel kit of 1600 MHz or faster. I don't know how much RAM video compiling takes, so hopefully someone else can help you there.

Video Card: For gaming, the GTX 770 or Radeon R9-280x are well priced for the performance, with the GTX 770 probably being the better deal right now. You can drop more money and get into the GTX 780, the GTX 780 Ti, the Radeon R9-290, or the Radeon R9-290X. For gaming, go with the GTX's, if your programs can make use of the GPU's compute power, the radeons will benefit you there. However, if you are only gaming at 1080P, and your programs can't utilize the GPU, than the GTX 770 is all the more GPU you need.

For the power supply, it will depend somewhat on what you pick for graphics. Assuming you go with a single high power card, like the GTX 780 Ti or the R9-290, those can draw up to 300 W. The CPU with and OC can draw over 150 W, plus motherboard, hard drive etc. The system can be looking at a full load power draw of 500-600 watts. The power supply needs to provide at least 20% more power than peak draw to not strain the PSU too much, but you also don't want too large of a power supply because they lose efficiency when operating at the low end of their power curve. So you probably want something in the 750-850 W range. I wouldn't go below 700W and over 850 W is more than needed.

I hope that helps.

Sounds like you are getting things figured out. Let me explain a little more about the CPU. Both are the same chip, the i7-4930K just has had 3 MB of the cache turned off during the binning process during manufacturing. Both chips can be overclocked and will probably be able to reach about the same clock speeds making them about identical in performance. That is why I was suggesting maybe going with the i7-4930k over the 4960X, just looking to save you some money without really sacrificing performance.

Motherboard: I checked the ASUS website, and the ASUS X79 Deluxe you wanted does support both Ivy Bridge-E (i7-4960X and i7-4930K) CPUs as of BIOS 0401. If you get a board made in the past 6 months it should come with that version or newer so it won't be a problem. If you get an older board that has been sitting in a warehouse for a while, you would need to download the newest version of the BIOS on a flash drive using another computer, and follow the instructions that will come with the motherboard to upgrade the BIOS.

RAM: Sounds like 32 GB might be the place to go. You want a 4 channel kit to utilize the 4 channel memory controller on the X79 motherboards. This memory set is listed as compatible with both the CPU and the motherboard. I have used GSkill several times and never had a problem.
http://www.newegg.com/Product/Product.aspx?Item=N82E16820231610

Case: as geofelt said, the case is a pretty personal thing. You can try reading through reviews on Newegg or tech review sites on cases you like to see what they say about the general quality and the noise. As a rule of thumb, large fans make less noise than small fans, they also move more air. 140 mm fans are pretty quiet when running at lower RPM. 200+ mm fans can be practically silent.

A bit on noise. When picking out your specific graphics card, try to find one with at least two axial flow fans. Radial flow (blower) fans tend to be a bit noisier for the same level of cooling performance. EVGA is probably the highest rating Nvidia partner. ASUS is also typically well regarded and its custom cooler always seems to perform well while staying quiet.
ASUS http://www.newegg.com/Product/Product.aspx?Item=N82E16814121838
EVGA http://www.newegg.com/Product/Product.aspx?Item=N82E16814487003