I have an file-browser input in my HTML.
I have another button with ID choose-file-button
Browser map many Ctrl+ shortcuts to own commands, for instance CTRL+O to open a file (in firefox).
On the same time browser behave different when you try to override such shortcuts in javascript. Some browsers allow you to do so, some don't, and sometimes the default browser action may pop up together with the action of your javascript.
Here is another thread discussing this topic.
Probably the best you can do is to choose a different shortcut.