Hai
I had also tried that but due to some security reason we cont run the exe but i will give the way to execute the exe.
step1
After creating the exe file
open a websetup project in that include your exe file when u include the exe all your referance file will also be included
then bulid the setup
then install it it will ask for virtual dir specift it it will be install in the loalhost server
then tpye the url like this
http://localhost/websepup1/windowsapplication1.exe
it will be executed and u can also execute it from remote
http://System01/websepup1/windowsapplication1.exe --------------now security warning will be listed
try it