You're correct that SOAP is protocol independent (even SOAP 1.1 allows multiple transports), but the only formally defined SOAP binding is for HTTP. Also note that the WS-I Basic Profile requires use of HTTP. My advice is to follow the WS-I Basic Profile unless you have very strong justification to make an exception for a specific application. The bottom line is that if you want to ensure multi-vendor interoperability, you should use HTTP.
There are issues associated with using HTTP, though. They are:
Quite a few companies address these issues by using a MOM protocol, such as WebSphere MQ. The issues associated with using a MOM protocol, though, are:
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