45104603
A Similarity Search Algorithm to Predict Protein Structures
Accurate prediction of protein structures is very important for many applications such as drug discovery and biotechnology. Building side chains is an essential to get any reliable prediction of the protein structure for any given a protein main chain conformation. Most of the methods that predict side chain conformations use statistically generated data from known protein structures. It is a computationally intractable problem to search suitable side chains from all possible rotamers simultaneously using information of known protein structures. Reducing the number of possibility is a main issue to predict side chain conformation. This paper proposes an enumeration based similarity search algorithm to predict side chain conformations. By introducing “beam search” technique, a significant number of unrelated side chain rotamers can easily be eliminated. As a result, we can search for suitable residue side chains from all possible side chain conformations.
39700388
Surface Spatial Index Structure of High-Dimensional Space
This paper proposes a spatial index structure based on a new space-partitioning method. Previous research proposed various high dimensional index structures. However, when dimensionality becomes high, the effectiveness of the spatial index structure disappears. This problem is called the “curse of dimensionality”. This paper focuses on the fact that the volume of high dimensional space is mostly occupied by its surface and then proposes a new surface index structure. The utility of this new surface spatial index structure is illustrated through a series of experiments.
10107398
Yet Another Induction Algorithm
Inducing general functions from specific training examples is a central problem in the machine learning. Using sets of If-then rules is the most expressive and readable manner. To find If-then rules, many induction algorithms such as ID3, AQ, CN2 and their variants, were proposed. Sequential covering is the kernel technique of them. To avoid testing all possible selectors, Entropy gain is used to select the best attribute in ID3. Constraint of the size of star was introduced in AQ and beam search was adopted in CN2. These methods speed up their induction algorithms but many good selectors are filtered out. In this work, we introduce a new induction algorithm that is based on enumeration of all possible selectors. Contrary to the previous works, we use pruning power to reduce irrelative selectors. But we can guarantee that no good selectors are filtered out. Comparing with other techniques, the experiment results demonstrate that the rules produced by our induction algorithm have high consistency and simplicity.
24794561
Finding Short Patterns to Classify Text Documents
Many classification methods have been proposed to find patterns in text documents. However, according to Occam's razor principle, "the explanation of any phenomenon should make as few assumptions as possible", short patterns usually have more explainable and meaningful for classifying text documents. In this paper, we propose a depth-first pattern generation algorithm, which can find out short patterns from text document more effectively, comparing with breadth-first algorithm
2536834
Extensible detection and indexing of highlight events in broadcasted sports video
Content-based indexing is fundamental to support and sustain the ongoing growth of broadcasted sports video. The main challenge is to design extensible frameworks to detect and index highlight events. This paper presents: 1) A statistical-driven event detection approach that utilizes a minimum amount of manual knowledge and is based on a universal scope-of-detection and audio-visual features; 2) A semi-schema-based indexing that combines the benefits of schema-based modeling to ensure that the video indexes are valid at all time without manual checking, and schema-less modeling to allow several passes of instantiation in which additional elements can be declared. To demonstrate the performance of the events detection, a large dataset of sport videos with a total of around 15 hours including soccer, basketball and Australian football is used.
12775848
Analyzing Inconsistency Toward Enhancing Integration of Biological Molecular Databases
The rapid growth of biological databases not only provides biologists with abundant data but also presents a big challenge in relation to the analysis of data. Many data analysis approaches such as data mining, information retrieval and machine learning have been used to extract frequent patterns from diverse biological databases. However, the discrepancies, due to the differences in the structure of databases and their terminologies, result in a significant lack of interoperability. Although ontology-based approaches have been used to integrate biological databases, the inconsistent analysis of biological databases has been greatly disregarded. This paper presents a method by which to measure the degree of inconsistency between biological databases. It not only presents a guideline for correct and efficient database integration, but also exposes high quality data for data mining and knowledge discovery.
712
Rational Radial Distortion Models with Analytical Undistortion Formulae
The common approach to radial distortion is by the means of polynomial approximation, which introduces distortion-specific parameters into the camera model and requires estimation of these distortion parameters. The task of estimating radial distortion is to find a radial distortion model that allows easy undistortion as well as satisfactory accuracy. This paper presents a new class of rational radial distortion models with easy analytical undistortion formulae. Experimental results are presented to show that with this class of rational radial distortion models, satisfactory and comparable accuracy is achieved.
28687449
WebGUIDE: Querying and Navigating Changes in Web Repositories
Abstract WebGUIDE is a system for exploring changes to World Wide Web pages and Web structure that supports recursive document comparison: users may explore the differences between pages with respect to two dates. Differences between pages are computed automatically and summarized in a new HTML page, and differences in link structure are shown via graphical representations. WebGUIDE is the combination of two tools that complement one another: the ATT Ciao [6] is a graphical navigator that allows users to query and browse structural connections embedded in a document repository. The union of these tools let users get information on the evolution of pages of interest (both textually and graphically), browse the differences interactively, and dynamically modify the set of pages with which they interact.
31504377
Mapping DTDs to object-oriented schemas
As a subset of SGML, XML (Extensible Markup Language) is becoming a dominant standard for representing data in the World Wide Web and therefore the efficient treatment of XML data is important for information transfer over a network. One way towards this goal is to integrate database technology into document management and bring the very nature of database systems into this area, such as query processing, efficient management of secondary storage, version and update control, etc. We propose a new method to map DTDs (Document Type Definition) into object-oriented schemas. In this way, any complicated DTD structure can be treated uniformly. That is, using the concepts of classification/generalization and aggregation of the object-oriented model, any complex nested and recursive structure in a DTD as well as multiple appearance of element types can be represented. These issues can not be addressed if we map a DTD into a relational schema.
12956058
Identifying meaningful return information for XML keyword search
Keyword search enables web users to easily access XML data without the need to learn a structured query language and to study possibly complex data schemas. Existing work has addressed the problem of selecting qualified data nodes that match keywords and connecting them in a meaningful way, in the spirit of inferring a where clause in XQuery. However, how to infer the return clause for keyword search is an open problem.
 To address this challenge, we present an XML keyword search engine, XSeek, to infer the semantics of the search and identify return nodes effectively. XSeek recognizes possible entities and attributes inherently represented in the data. It also distinguishes between search predicates and return specifications in the keywords. Then based on the analysis of both XML data structures and keyword match patterns, XSeek generates return nodes. Extensive experimental studies show the effectiveness of XSeek.
1548803
I/O-efficient techniques for computing pagerank
Over the last few years, most major search engines have integrated link-based ranking techniques in order to provide more accurate search results. One widely known approach is the Pagerank technique, which forms the basis of the Google ranking scheme, and which assigns a global importance measure to each page based on the importance of other pages pointing to it. The main advantage of the Pagerank measure is that it is independent of the query posed by a user; this means that it can be precomputed and then used to optimize the layout of the inverted index structure accordingly. However, computing the Pagerank measure requires implementing an iterative process on a massive graph corresponding to billions of web pages and hyperlinks.In this paper, we study I/O-efficient techniques to perform this iterative computation. We derive two algorithms for Pagerank based on techniques proposed for out-of-core graph algorithms, and compare them to two existing algorithms proposed by Haveliwala. We also consider the implementation of a recently proposed topic-sensitive version of Pagerank. Our experimental results show that for very large data sets, significant improvements over previous results can be achieved on machines with moderate amounts of memory. On the other hand, at most minor improvements are possible on data sets that are only moderately larger than memory, which is the case in many practical scenarios.