Hmm, do you mean...

Also refers to the process of annotating a document or an entry in a bibliography or catalog

Also refers to: (the process of annotating a document) or (an entry in a bibliography or catalog)

so either (i) a process, or (ii) an entry

or

Also refers to: the process of annotating: (a document) or (an entry in a bibliography or catalog)

where you annotate (i) a document, or (ii) an entry

but not

Also refers to: the process of: (annotating: a document) or (an entry in a bibliography or catalog)

since you can have (i) a process of annotating, but not (ii) a process of an entry