We have a problem here because of this being all written. There are a dozen expressions depending on intonation. I suppose you're asking about "¡¡¿Cómo que no?!!" that is an expression from hard to irate, generally used to express astonishment because someone is trying to prevent us to do something we're are entitled to, or someone is denying some fact that we know is true and that changes the 'playing field'.
Other use could be someone saying here "dog no significa perro" and other person replying "¿Cómo que no? Mira este link". In such case it is the contradiction of a negative statement.
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