AFAIK the aspera tool is for uploading/downloading large datasets that exist as separate files on disk. The results of dynamically generated queries do not exist in such a form.

There is a command-line version (ascp), maybe you could incorporate it in a script?

http://www.ncbi.nlm.nih.gov/books/NBK47527/ also: http://betascience.blogspot.com/2010/02/using-aspera-instead-of-ftp-to-download.html

I couldn't even make ascp accept wildcards, although the documentation suggests it is possible. Basically you need to know which files you want a priori.