Timed systems, such as timed automata, are usually analyzed using their operational semantics on timed words. The classical region abstraction for timed automata reduces them to (untimed) finite state automata with the same time-abstract properties, such as state reachability. We propose a new technique to analyze such timed systems using finite tree automata instead of finite word automata. The main idea is to consider timed behaviors as graphs with matching edges capturing timing constraints. When a family of graphs has bounded tree-width, they can be interpreted in trees and MSO-definable properties of such graphs can be checked using tree automata. The technique is quite general and applies to many timed systems. In this paper, as an example, we develop the technique on timed pushdown systems, which have recently received considerable attention. Further, we also demonstrate how we can use it on timed automata and timed multi-stack pushdown systems (with boundedness restrictions).