Efficient and effective metasearch for text databases incorporating linkages among documents
Linkages among documents have a significant impact on the importance of documents, as it can be argued that important documents are pointed to by many documents or by other important documents. Metasearch engines can be used to facilitate ordinary users for retrieving information from multiple local sources (text databases). There is a search engine associated with each database. In a large-scale metasearch engine, the contents of each local database is represented by a representative. Each user query is evaluated against he set of representatives of all databases in order to determine the appropriate databases (search engines) to search (invoke) In previous word, the linkage information between documents has not been utilized in determining the appropriate databases to search. In this paper, such information is employed to determine the degree of relevance of a document with respect to a given query. Specifically, the importance (rank) of each document as determined by the linkages is integrated in each database representative to facilitate the selection of databases for each given query. We establish a necessary and sufficient condition to rank databases optimally, while incorporating the linkage information. A method is provided to estimate the desired quantities stated in the necessary and sufficient condition. The estimation method runs in time linearly proportional to the number of query terms. Experimental results are provided to demonstrate the high retrieval effectiveness of the method.

title: A Methodology to Retrieve Text Documents from Multiple Databases
abstract: This paper presents a methodology for finding the n most similar documents across multiple text databases for any given query and for any positive integer n. This methodology consists of two steps. First, the contents of databases are indicated approximately by database representatives. Databases are ranked using their representatives with respect to the given query. We provide a necessary and sufficient condition to rank the databases optimally. In order to satisfy this condition, we provide three estimation methods. One estimation method is intended for short queries; the other two are for all queries. Second, we provide an algorithm, OptDocRetrv, to retrieve documents from the databases according to their rank and in a particular way. We show that if the databases containing the n most similar documents for a given query are ranked ahead of other databases, our methodology will guarantee the retrieval of the n most similar documents for the query. When the number of databases is large, we propose to organize database representatives into a hierarchy and employ a best-search algorithm to search the hierarchy. It is shown that the effectiveness of the best-search algorithm is the same as that of evaluating the user query against all database representatives.

title: Determining Text Databases to Search in the Internet
abstract: Text data in the Internet can be partitioned into many databases naturally. Efficient retrieval of desired data can be achieved if we can accurately predict the usefulness of each database, because with such information, we only need to retrieve potentially useful documents from useful databases. In this paper, we propose two new methods for estimating the usefulness of text databases. For a given query, the usefulness of a text database in this paper is defined to be the number of documents in the database that are sufficiently similar to the query. Such a usefulness measure enables naive-users to make informed decision about which databases to search. We also consider the collection fusion problem. Because local databases may employ similarity functions that are different from that used by the global database, the threshold used by a local database to determine whether a document is potentially useful may be different from that used by the global database. We provide techniques that determine the best threshold for a given local database.

title: Mining officially unrecognized side effects of drugs by combining web search and machine learning
abstract: We consider the problem of finding officially unrecognized side effects of drugs. By submitting queries to the Web involving a given drug name, it is possible to retrieve pages concerning the drug. However, many retrieved pages are irrelevant and some relevant pages are not retrieved. More relevant pages can be obtained by adding the active ingredient of the drug to the query. In order to eliminate irrelevant pages, we propose a machine learning process to filter out the undesirable pages. The process is shown experimentally to be very effective. Since obtaining training data for the machine learning process can be time consuming and expensive, we provide an automatic method to generate the training data. The method is also shown to be very accurate. The side effects of three drugs which are not recognized by FDA are validated by an expert. We believe that the same approach can be applied to many real life problems and will yield high precision. Thus, this could lead a new way to perform retrieval with high accuracy.

title: WISE-Integrator: An Automatic Integrator of Web Search Interfaces for E-Commerce
abstract: More and more databases are becoming Web accessible through form-based search interfaces, and many of these sources are E-commerce sites. Providing a unified access to multiple E-commerce search engines selling similar products is of great importance in allowing users to search and compare products from multiple sites with ease. One key task for providing such a capability is to integrate the Web interfaces of these E-commerce search engines so that user queries can be submitted against the integrated interface. Currently, integrating such search interfaces is carried out either manually or semi-automatically, which is inefficient and difficult to maintain. In this paper, we present WISE-Integrator - a tool that performs automatic integration of Web Interfaces of Search Engines. WISE-Integrator employs sophisticated techniques to identify matching attributes from different search interfaces for integration. It also resolves domain differences of matching attributes. Our experimental results based on 20 and 50 interfaces in two different domains indicate that WISE-Integrator can achieve high attribute matching accuracy and can produce high-quality integrated search interfaces without human interactions.

title: Fully automatic wrapper generation for search engines
abstract: When a query is submitted to a search engine, the search engine returns a dynamically generated result page containing the result records, each of which usually consists of a link to and/or snippet of a retrieved Web page. In addition, such a result page often also contains information irrelevant to the query, such as information related to the hosting site of the search engine and advertisements. In this paper, we present a technique for automatically producing wrappers that can be used to extract search result records from dynamically generated result pages returned by search engines. Automatic search result record extraction is very important for many applications that need to interact with search engines such as automatic construction and maintenance of metasearch engines and deep Web crawling. The novel aspect of the proposed technique is that it utilizes both the visual content features on the result page as displayed on a browser and the HTML tag structures of the HTML source file of the result page. Experimental results indicate that this technique can achieve very high extraction accuracy.

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: Querying Complex Structured Databases
abstract: Correctly generating a structured query (e.g., an XQuery or a SQL query) requires the user to have a full understanding of the database schema, which can be a daunting task. Alternative query models have been proposed to give users the ability to query the database without schema knowledge. Those models, including simple keyword search and labeled keyword search, aim to extract meaningful data fragments that match the structure-free query conditions (e.g., keywords) based on various matching semantics. Typically, the matching semantics are content-based: they are defined on data node inter-relationships and incur significant query evaluation cost. Our first contribution is a novel matching semantics based on analyzing the database schema. We show that query models employing a schema-based matching semantics can reduce query evaluation cost significantly while maintaining or even improving result quality. 
 
The adoption of schema-based matching semantics does not change the nature of those query models: they are still schema-ignorant, i.e., users express no schema knowledge (except the labels in labeled keyword search) in the query. While those models work well for some queries on some databases, they often encounter problems when applied to complex queries on databases with complex schemas. Our second contribution is a novel query model that incorporates partial schema knowledge through the use of schema summary. This new summary-aware query model, called Meaningful Summary Query (MSQ), seamlessly integrates summary-based structural conditions and structure-free conditions, and enables ordinary users to query complex databases. We design algorithms for evaluating MSQ queries, and demonstrate that MSQ queries can produce better results against complex databases when compared with previous approaches, and that they can be efficiently evaluated.

title: TIMBER: A native XML database
abstract: 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: 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: 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: .