MSBuild Script and VS2010 publish apply Web.config Transform

So, I have VS 2010 installed and am in the process of modifying my MSBuild script for our TeamCity build integration. Everything is working great with one exception.

How can I tell MSBuild that I want to apply the Web.conifg transform files that I've created when I publish the build...

I have the following which produces the compiled web site but, it outputs a Web.config, Web.Debug.config and, Web.Release.config files (All 3) to the compiled output directory. In studio when I perform a publish to file system it will do the transform and only output the Web.config with the appropriate changes...

<Target Name="CompileWeb">
    <MSBuild Projects="myproj.csproj" Properties="Configuration=Release;" />
</Target>

<Target Name="PublishWeb" DependsOnTargets="CompileWeb">
    <MSBuild Projects="myproj.csproj"
    Targets="ResolveReferences;_CopyWebApplication"
    Properties="WebProjectOutputDir=$(OutputFolder)$(WebOutputFolder);
                OutDir=$(TempOutputFolder)$(WebOutputFolder)\;Configuration=Release;" />
</Target>

Any help would be great..!

I know this can be done by other means but I would like to do this using the new VS 2010 way if possible