Migrating Data from Debian to ubuntu server

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http://unix.stackexchange.com – I am current in the process of migrating my website(big and complex with mysql backend) from debian server to ubuntu server. The kernel of debian and ubuntu are different. I have some concerned questions : Is it possible to migrate database and website (with etc and home folder) from one server to another if the kernel version is different? My understanding is it may cause error, because the kernel architecture are different which may cause some dependency error. Does my understanding is wrong? (HowTos)