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A three-source information system of this paper is an information system where there exist three data: categorical, boolean and set-valued data. This paper explores uncertainty measurement for this kind of information system. The concept of a three-source information system is first described by means of set matrices. Then, information structures in a three-source information system are presented and relationships between information structures are studied from the two aspects of dependence and separation. Next, properties of information structures in a three-source information system are given by using inclusion degree. Finally, as an application for information structures, uncertainty measurement for a three-source information system are investigated by means of its information structures. 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