I am not sure if you can directly upload the files, but I would use webroot as the target.
I haven't tried to FTP to the system, but I uploaded each one of them manually using the file upload part of the file manager.
It is tedious, but works.
If you are using an ASP.Net file with a database, you will have to modify the connection strings and they want you to upload database files to the database directory.
You will have to use a database directory in your VS 2010 app to get the most of it, and I would recommend using SQLDataSource instead of AccessDataSource if you use an Access database. The connection strings have a comparable format when you use a SQLDataSource.
Also, I couldn't get SQLServer to work on this site. That is probably just something I am doing wrong, but I went with an Access database and get the same results.