XML（Extensible Markup Language）, a semi-structured markup language, is a widely used standard format for data exchange and storage of documents on the Web. In recent years, many XML indexing methods have been proposed to speed up query processing. However, when the XML document contains XLink and XPointer elements, which are used to represent the association between the file resources, most of the indexing methods ignore the underlying information of XLink and XPointer. Most of researches on handling queries involving XLink/XPointer focused on transferring XLink/ XPointer elements to HTML-like hyperlinks. Then the users can view the information of XLink/XPointer elements through the browser. Although there are some papers employing the XLink/XPointer mechanism for expressing references between XML documents, they didn't integrate the indexing methods into the systems. The purpose of this thesis is to enhance the functions of the UCIS-X（an Updatable Compacted Indexing Scheme for XML documents）so that distributed XML documents that are linked by XLink/XPointer can be queried transparently. A system that includes the indexing mechanism, query processing, and browsing capabilities is also developed.