Design and Implementation of the UniProt Website

The UniProt consortium is the main provider of protein sequence and annotation data for much of the life sciences community. The "www.uniprot.org":http://www.uniprot.org website is the primary access point to this data and to documentation and basic tools for the data. This paper discusses the design and implementation of the new website, which was released in July 2008, and shows how it improves data access for users with different levels of experience, as well as to machines for programmatic access

Location-based indexing for mobile context-aware access to a digital library

Mobile information systems need to collaborate with each other to provide seamless information access to the user. Information about the user and their context provides the points of contact between the systems. Location is the most basic user context. TIP is a mobile tourist information system that provides location-based access to documents in the digital library Greenstone. This paper identifies the challenges for providing effcient access to location-based information using the various access modes a tourist requires on their travels. We discuss our extended 2DR-tree approach to meet these challenges

A high-performance data structure for mobile information systems

Mobile information systems can now be provided on small form-factor computers. Dictionary-based data compression extends the capabilities of systems with limited processing and memory to enable data intensive applications to be supported in such environments. The nature of judicial sentencing decisions requires that a support system provides accurate and up-to-date data and is compatible with the professional working experience of a judge. The difficulties caused by mobility and the data dependence of the decision-making process are addressed by an Internet-based architecture for collecting and distributing system data.We describe an approach to dictionary-based data compression and the structure of an information system that makes use of this technology

Spatio-textual indexing for geographical search on the web

Many web documents refer to specific geographic localities and many people include geographic context in queries to web search engines. Standard web search engines treat the geographical terms in the same way as other terms. This can result in failure to find relevant documents that refer to the place of interest using alternative related names, such as those of included or nearby places. This can be overcome by associating text indexing with spatial indexing methods that exploit geo-tagging procedures to categorise documents with respect to geographic space. We describe three methods for spatio-textual indexing based on multiple spatially indexed text indexes, attaching spatial indexes to the document occurrences of a text index, and merging text index access results with results of access to a spatial index of documents. These schemes are compared experimentally with a conventional text index search engine, using a collection of geo-tagged web documents, and are shown to be able to compete in speed and storage performance with pure text indexing

A grid-based infrastructure for distributed retrieval

In large-scale distributed retrieval, challenges of latency, heterogeneity, and dynamicity emphasise the importance of infrastructural support in reducing the development costs of state-of-the-art solutions. We present a service-based infrastructure for distributed retrieval which blends middleware facilities and a design framework to ‘lift’ the resource sharing approach and the computational services of a European Grid platform into the domain of e-Science applications. In this paper, we give an overview of the DILIGENT Search Framework and illustrate its exploitation in the field of Earth Science

Abmash: Mashing Up Legacy Web Applications by Automated Imitation of Human Actions

Many business web-based applications do not offer applications programming interfaces (APIs) to enable other applications to access their data and functions in a programmatic manner. This makes their composition difficult (for instance to synchronize data between two applications). To address this challenge, this paper presents Abmash, an approach to facilitate the integration of such legacy web applications by automatically imitating human interactions with them. By automatically interacting with the graphical user interface (GUI) of web applications, the system supports all forms of integrations including bi-directional interactions and is able to interact with AJAX-based applications. Furthermore, the integration programs are easy to write since they deal with end-user, visual user-interface elements. The integration code is simple enough to be called a "mashup".Comment: Software: Practice and Experience (2013)

Comprehensive characterization of an open source document search engine

This work performs a thorough characterization and analysis of the open source Lucene search library. The article describes in detail the architecture, functionality, and micro-architectural behavior of the search engine, and investigates prominent online document search research issues. In particular, we study how intra-server index partitioning affects the response time and throughput, explore the potential use of low power servers for document search, and examine the sources of performance degradation ands the causes of tail latencies. Some of our main conclusions are the following: (a) intra-server index partitioning can reduce tail latencies but with diminishing benefits as incoming query traffic increases, (b) low power servers given enough partitioning can provide same average and tail response times as conventional high performance servers, (c) index search is a CPU-intensive cache-friendly application, and (d) C-states are the main culprits for performance degradation in document search.Web of Science162art. no. 1