Nearly every known protocol has been documented in IRP notation which specifies duty cycle:
[Link: hifi-remote.com]

So simply download IrScrutinizer and look at the IrpProtocols.ini file:
[Link: hifi-remote.com]

As for which manufacturers use which protocols, that's an exercise in futility. Most have used many different protocols over the years. The most comprehensive list we have is the JP1 Master list: [Link: hifi-remote.com]