if possible, look at/change the following php.ini directives:
max_execution_time
max_input_time
post_max_size
upload_max_filesize
mysql.connect_timeout
also look at the following phpMyAdmin directives (in config.inc.php):
$cfg['ExecTimeLimit']
$cfg['MemoryLimit']
if you are unable or unwilling to change the above settings then you should look at Big Dump