The ALVIS Format for Linguistically Annotated Documents

The paper describes the ALVIS annotation format designed for the indexing of large collections of documents in topic-specific search engines. This paper is exemplified on the biological domain and on MedLine abstracts, as developing a specialized search engine for biologists is one of the ALVIS case studies. The ALVIS principle for linguistic annotations is based on existing works and standard propositions. We made the choice of stand-off annotations rather than inserted mark-up. Annotations are encoded as XML elements which form the linguistic subsection of the document record

Hierarchical Communication Diagrams

Formal modelling languages range from strictly textual ones like process algebra scripts to visual modelling languages based on hierarchical graphs like coloured Petri nets. Approaches equipped with visual modelling capabilities make developing process easier and help users to cope with more complex systems. Alvis is a modelling language that combines possibilities of formal models verification with flexibility and simplicity of practical programming languages. The paper deals with hierarchical communication diagrams - the visual layer of the Alvis modelling language. It provides all necessary information to model system structure with Alvis, to manipulate a model hierarchy and to understand a model semantics. All considered concepts are discussed using illustrative examples

Barnes Hospital Bulletin

https://digitalcommons.wustl.edu/bjc_barnes_bulletin/1139/thumbnail.jp

Barnes Hospital Bulletin

https://digitalcommons.wustl.edu/bjc_barnes_bulletin/1059/thumbnail.jp

Peer to Peer Information Retrieval: An Overview

Peer-to-peer technology is widely used for file sharing. In the past decade a number of prototype peer-to-peer information retrieval systems have been developed. Unfortunately, none of these have seen widespread real- world adoption and thus, in contrast with file sharing, information retrieval is still dominated by centralised solutions. In this paper we provide an overview of the key challenges for peer-to-peer information retrieval and the work done so far. We want to stimulate and inspire further research to overcome these challenges. This will open the door to the development and large-scale deployment of real-world peer-to-peer information retrieval systems that rival existing centralised client-server solutions in terms of scalability, performance, user satisfaction and freedom

A computer system to perform structure comparison using TOPS representations of protein structure

We describe the design and implementation of a fast topology–based method for protein structure comparison. The approach uses the TOPS topological representation of protein structure, aligning two structures using a common discovered pattern and generating measure of distance derived from an insert score. Heavy use is made of a constraint-based pattern matching algorithm for TOPS diagrams that we have designed and described elsewhere Gilbert et al. (1999). The comparison system is maintained at the European Bioinformatics Institute and is available over the Web via the at tops.ebi.ac.uk/tops. Users submit a structure description in Protein Data Bank (PDB) format and can compare it with structures in the entire PDB or a representative subset of protein domains, receiving the results by email