MOTIVATIONS: Technological advances in biomedical research are generating a plethora of heterogeneous data at a high rate. There is a critical need for extraction, integration and management tools for information discovery and synthesis from these heterogeneous data. RESULTS: In this paper, we present a general architecture, called ALFA, for information extraction and representation from diverse biological data. The ALFA architecture consists of: (i) a networked, hierarchical, hyper-graph object model for representing information from heterogeneous data sources in a standardized, structured format; and (ii) a suite of integrated, interactive software tools for information extraction and representation from diverse biological data sources. As part of our research efforts to explore this space, we have currently prototyped the ALFA object model and a set of interactive software tools for searching, filtering, and extracting information from scientific text. In particular, we describe BioFerret, a meta-search tool for searching and filtering relevant information from the web, and ALFA Text Viewer, an interactive tool for user-guided extraction, disambiguation, and representation of information from scientific text. We further demonstrate the potential of our tools in integrating the extracted information with experimental data and diagrammatic biological models via the common underlying ALFA representation. CONTACT: [email protected].

The main task of molecular biologists seeking to understand the molecular basis of disease is identifying and interpreting the relationships of genes, proteins, and pathways in living organisms. While emerging technologies have provided powerful analysis tools to this end, they have also produced an explosion of data, which biologists need to make sense of. We have built software tools to support the synthesis activities of molecular biologists, in particular the activities of organizing, retrieving, using, sharing, and reusing diverse biological information. A key aspect of our approach, based upon the findings of user studies, is the use of narrative structure as a conceptual framework for developing and representing the "story" of how genes, proteins, and other molecules interact in biological processes. Biological stories are represented both textually and graphically within a simple conceptual model of items, collections, and stories.

The field of molecular biology is in a remarkably rapid period of change, as the genome sequencing projects and new experimental technologies have generated an explosion of data. To analyze and draw insights from the vast amounts of information, biologists use a new generation of bioinformatics software tools, often working closely with mathematicians and computer scientists. There are elements of both collision and convergence in these interdisciplinary encounters. We conducted user studies with biologists engaged in investigating the molecular basis of disease. We describe several issues that arise in this collision/convergence of disciplines, drawing on the notion of boundary objects in-the-making. We provide recommendations on building technology for people whose work now sits at the crossroads of diverse and rapidly changing scientific fields.

Article A diary study of work-related reading: design implications for digital reading devices Share on Authors: Annette Adler Xerox Palo Alto Research Center, 3333 Coyote Hill Rd., Palo Alto, CA Xerox Palo Alto Research Center, 3333 Coyote Hill Rd., Palo Alto, CAView Profile , Anuj Gujar Xerox Palo Alto Research Center, 3333 Coyote Hill Rd., Palo Alto, CA Xerox Palo Alto Research Center, 3333 Coyote Hill Rd., Palo Alto, CAView Profile , Beverly L. Harrison Xerox Palo Alto Research Center, 3333 Coyote Hill Rd., Palo Alto, CA Xerox Palo Alto Research Center, 3333 Coyote Hill Rd., Palo Alto, CAView Profile , Kenton O'Hara Xerox Research Centre Europe, (formerly Rank Xerox Research Centre) 61 Regent St., Cambridge, CB2 1AB, UK Xerox Research Centre Europe, (formerly Rank Xerox Research Centre) 61 Regent St., Cambridge, CB2 1AB, UKView Profile , Abigail Sellen Xerox Research Centre Europe, (formerly Rank Xerox Research Centre) 61 Regent St., Cambridge, CB2 1AB, UK Xerox Research Centre Europe, (formerly Rank Xerox Research Centre) 61 Regent St., Cambridge, CB2 1AB, UKView Profile Authors Info & Claims CHI '98: Proceedings of the SIGCHI Conference on Human Factors in Computing SystemsJanuary 1998 Pages 241–248https://doi.org/10.1145/274644.274679Published:01 January 1998 147citation2,498DownloadsMetricsTotal Citations147Total Downloads2,498Last 12 Months123Last 6 weeks12 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteGet Access

Collaboration has long been of considerable interest in the CHI community. This paper proposes and explores the concept of network communities as a crucial part of this discussion. Network communities are a form of technologymediated environment that foster a sense of community among users. We consider several familiar systems and describe the shared characteristics these systems have developed to deal with critical concerns of collaboration. Based on our own experience as designers and users of a variety of network communities, we extend this initial design space along three dimensions: the articulation of a persistent sense of location, the boundary tensions between real and virtual worlds, and the emergence and evolution of community. KEYWORDS: media space, MUDs, network community, shared space, metaphor, identity, virtual world INTRODUCTION There has long been interest in the CHI community in supporting groups of people collaborating, in particular, the informal, awareness-rich,...

Article Free Access Share on A room of our own: experiences from a direct office share Authors: Annette Adler Xerox Corporation, 3333 Coyote Hill Rd., Palo Alto, CA Xerox Corporation, 3333 Coyote Hill Rd., Palo Alto, CAView Profile , Austin Henderson Xerox Corporation, 3333 Coyote Hill Rd., Palo Alto, CA Xerox Corporation, 3333 Coyote Hill Rd., Palo Alto, CAView Profile Authors Info & Claims CHI '94: Proceedings of the SIGCHI Conference on Human Factors in Computing SystemsApril 1994 Pages 138–144https://doi.org/10.1145/191666.191727Published:24 April 1994Publication History 11citation536DownloadsMetricsTotal Citations11Total Downloads536Last 12 Months32Last 6 weeks1 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF