TIMBER: A native XML database
This paper describes the overall design and architecture of the Timber XML database system currently being implemented at the University of Michigan. The system is based upon a bulk algebra for manipulating trees, and natively stores XML. New access methods have been developed to evaluate queries in the XML context, and new cost estimation and query optimization techniques have also been developed. We present performance numbers to support some of our design decisions. We believe that the key intellectual contribution of this system is a comprehensive set-at-a-time query processing ability in a native XML store, with all the standard components of relational query processing, including algebraic rewriting and a cost-based optimizer.

title: Constraint-based XML query rewriting for data integration
abstract: We study the problem of answering queries through a target schema, given a set of mappings between one or more source schemas and this target schema, and given that the data is at the sources. The schemas can be any combination of relational or XML schemas, and can be independently designed. In addition to the source-to-target mappings, we consider as part of the mapping scenario a set of target constraints specifying additional properties on the target schema. This becomes particularly important when integrating data from multiple data sources with overlapping data and when such constraints can express data merging rules at the target. We define the semantics of query answering in such an integration scenario, and design two novel algorithms, basic query rewrite and query resolution, to implement the semantics. The basic query rewrite algorithm reformulates target queries in terms of the source schemas, based on the mappings. The query resolution algorithm generates additional rewritings that merge related information from multiple sources and assemble a coherent view of the data, by incorporating target constraints. The algorithms are implemented and then evaluated using a comprehensive set of experiments based on both synthetic and real-life data integration scenarios.

title: Michigan Molecular Interactions (MiMI): putting the jigsaw puzzle together
abstract: Protein interaction data exists in a number of repositories. Each repository has its own data format, molecule identifier and supplementary information. Michigan Molecular Interactions (MiMI) assists scientists searching through this overwhelming amount of protein interaction data. MiMI gathers data from well-known protein interaction databases and deep-merges the information. Utilizing an identity function, molecules that may have different identifiers but represent the same real-world object are merged. Thus, MiMI allows the users to retrieve information from many different databases at once, highlighting complementary and contradictory information. To help scientists judge the usefulness of a piece of data, MiMI tracks the provenance of all data. Finally, a simple yet powerful user interface aids users in their queries, and frees them from the onerous task of knowing the data format or learning a query language. MiMI allows scientists to query all data, whether corroborative or contradictory, and specify which sources to utilize. MiMI is part of the National Center for Integrative Biomedical Informatics (NCIBI) and is publicly available at: .

title: Querying structured text in an XML database
abstract: XML databases often contain documents comprising structured text. Therefore, it is important to integrate "information retrieval style" query evaluation, which is well-suited for natural language text, with standard "database style" query evaluation, which handles structured queries efficiently. Relevance scoring is central to information retrieval. In the case of XML, this operation becomes more complex because the data required for scoring could reside not directly in an element itself but also in its descendant elements.In this paper, we propose a bulk-algebra, TIX, and describe how it can be used as a basis for integrating information retrieval techniques into a standard pipelined database query evaluation engine. We develop new evaluation strategies essential to obtaining good performance, including a stack-based TermJoin algorithm for efficiently scoring composite elements. We report results from an extensive experimental evaluation, which show, among other things, that the new TermJoin access method outperforms a direct implementation of the same functionality using standard operators by a large factor.

title: Semantic Adaptation of Schema Mappings when Schemas Evolve
abstract: Schemas evolve over time to accommodate the changes in the information they represent. Such evolution causes invalidation of various artifacts depending on the schemas, such as schema mappings. In a heterogenous environment, where cooperation among data sources depends essentially upon them, schema mappings must be adapted to reflect schema evolution. In this study, we explore the mapping composition approach for addressing this mapping adaptation problem. We study the semantics of mapping composition in the context of mapping adaptation and compare our approach with the incremental approach of Velegrakis et al [21]. We show that our method is superior in terms of capturing the semantics of both the original mappings and the evolution. We design and implement a mapping adaptation system based on mapping composition as well as additional mapping pruning techniques that significantly speed up the adaptation. We conduct comprehensive experimental analysis and show that the composition approach is practical in various evolution scenarios. The mapping language that we consider is a nested relational extension of the second-order dependencies of Fagin et al . Our work can also be seen as an implementation of the mapping composition operator of the model management framework.

title: Schema-Free XQuery
abstract: The widespread adoption of XML holds out the promise that document structure can be exploited to specify precise database queries. However, the user may have only a limited knowledge of the XML structure, and hence may be unable to produce a correct XQuery, especially in the context of a heterogeneous information collection. The default is to use keyword-based search and we are all too familiar with how difficult it is to obtain precise answers by these means. We seek to address these problems by introducing the notion of Meaningful Lowest Common Ancestor Structure (MLCAS) for finding related nodes within an XML document. By automatically computing MLCAS and expanding ambiguous tag names, we add new functionality to XQuery and enable users to take full advantage of XQuery in querying XML data precisely and efficiently without requiring (perfect) knowledge of the document structure. Such a Schema-Free XQuery is potentially of value not just to casual users with partial knowledge of schema, but also to experts working in a data integration or data evolution context. In such a context, a schema-free query, once written, can be applied universally to multiple data sources that supply similar content under different schemas, and applied "forever" as these schemas evolve. Our experimental evaluation found that it was possible to express a wide variety of queries in a schema-free manner and have them return correct results over a broad diversity of schemas. Furthermore, the evaluation of a schema-free query is not expensive using a novel stack-based algorithm we develop for computing MLCAS: from 1 to 4 times the execution time of an equivalent schema-aware query.

title: Personalized Web search for improving retrieval effectiveness
abstract: Current Web search engines are built to serve all users, independent of the special needs of any individual user. Personalization of Web search is to carry out retrieval for each user incorporating his/her interests. We propose a novel technique to learn user profiles from users' search histories. The user profiles are then used to improve retrieval effectiveness in Web search. A user profile and a general profile are learned from the user's search history and a category hierarchy, respectively. These two profiles are combined to map a user query into a set of categories which represent the user's search intention and serve as a context to disambiguate the words in the user's query. Web search is conducted based on both the user query and the set of categories. Several profile learning and category mapping algorithms and a fusion algorithm are provided and evaluated. Experimental results indicate that our technique to personalize Web search is both effective and efficient.

title: A multimodal learning interface for grounding spoken language in sensory perceptions
abstract: We present a multimodal interface that learns words from natural interactions with users. In light of studies of human language development, the learning system is trained in an unsupervised mode in which users perform everyday tasks while providing natural language descriptions of their behaviors. The system collects acoustic signals in concert with user-centric multisensory information from nonspeech modalities, such as user's perspective video, gaze positions, head directions, and hand movements. A multimodal learning algorithm uses this data to first spot words from continuous speech and then associate action verbs and object names with their perceptually grounded meanings. The central ideas are to make use of nonspeech contextual information to facilitate word spotting, and utilize body movements as deictic references to associate temporally cooccurring data from different modalities and build hypothesized lexical items. From those items, an EM-based method is developed to select correct word--meaning pairs. Successful learning is demonstrated in the experiments of three natural tasks: "unscrewing a jar," "stapling a letter," and "pouring water."

title: On the Integration of Grounding Language and Learning Objects
abstract: This paper presents a multimodal learning system that can ground spoken names of objects in their physical referents and learn to recognize those objects simultaneously from naturally co-occurring multisensory input. There are two technical problems involved: (1) the correspondence problem in symbol grounding - how to associate words (symbols) with their perceptually grounded meanings from multiple cooccurrences between words and objects in the physical environment. (2) object learning - how to recognize and categorize visual objects. We argue that those two problems can be fundamentally simplified by considering them in a general system and incorporating the spatio-temporal and cross-modal constraints of multimodal data. The system collects egocentric data including image sequences as well as speech while users perform natural tasks. It is able to automatically infer the meanings of object names from vision, and categorize objects based on teaching signals potentially encoded in speech. The experimental results reported in this paper reveal the effectiveness of using multimodal data and integrating heterogeneous techniques in machine learning, natural language processing and computer vision.

title: Attentional object spotting by integrating multimodal input
abstract: An intelligent human-computer interface is expected to allow computers to work with users in a cooperative manner. To achieve this goal, computers need to be aware of user attention and provide assistance without explicit user requests. Cognitive studies of eye movements suggest that in accomplishing well-learned tasks, the performer's focus of attention is locked onto ongoing work and more than 90% of eye movements are closely related to the objects being manipulated in the tasks. In light of this, we have developed an attentional object spotting system that integrates multimodal data consisting of eye position, head position and video from the "first-person" perspective. To detect the user's focus of attention, we modeled eye gaze and head movements using a hidden Markov model (HMM) representation. For each attentional point in time, the object of user interest is automatically extracted and recognized. We report the results of experiments on finding attentional objects in the natural task of "making a peanut-butter sandwich".

title: Distributed Top-N Query Processing with Possibly Uncooperative Local Systems
abstract: We consider the problem of processing top-N queries in a distributed environment with possibly uncooperative local database systems. For a given top-N query, the problem is to find the N tuples that satisfy the query the best but not necessarily completely in an efficient manner. Top-N queries are gaining popularity in relational databases and are expected to be very useful for e-commerce applications. Many companies provide the same type of goods and services to the public on the Web, and relational databases may be employed to manage the data. It is not feasible for a user to query a large number of databases. It is therefore desirable to provide a facility where a user query is accepted at some site, suitable tuples from appropriate sites are retrieved and the results are merged and then presented to the user. In this paper, we present a method for constructing the desired facility. Our method consists of two steps. The first step determines which databases are likely to contain the desired tuples for a given query so that the databases can be ranked based on their desirability with respect to the query. Four different techniques are introduced for this step with one requiring no cooperation from local systems. The second step determines how the ranked databases should be searched and what tuples from the searched databases should be returned. A new algorithm is proposed for this purpose. Experimental results are presented to compare different methods and very promising results are obtained using the method that requires no cooperation from local databases.