Usually disinfection process must be properly done by bootable of their AV rescue disk
With Mid and Low-treats, disinfection can be done in Normal Mode using the AV of your choice. High-treat like sality can be removed using a PE environment. Other nasty malwares can be disabled via offline registry editing or can be manually removed using a bootable CD/DVD/USB (Linux included, if you know where to hunt these critters) Continuation of the removal process can be performed still in Normal Mode.
You can also do disinfection in Safe Mode.
When I was just starting in this field, I use Boot CDs or Bootable AVs right away, or start with Safe Mode. As I mature, I always start in Normal Mode, if not successful will use a Bootable USB then to Safe Mode.
unless I'm wrong where they are same to the AV you use to protect the system.
Most of the time, I uninstall the AV first. No point of using it if it is compromised already. Better replace it with a new one when all malwares are disabled from starting up.