File and folder permission work differently in Windows and Linux/Apache.
If you need to alter the permission for the folder or files from our Windows Server 2008, you could do it through the DotNetPanel file manager.
Step to alter the folder/file permission:
1. Log into your DotNetPanel.
2. Select on the File Manager link as image above.
3. Select the folder that you wish to alter the permission and click on the lock icon.
4. You will show the setting as above where domain.com should refer to your own domain name and network service is for application user.