University of Illinois at Urbana-Champaign

BeeSpace Project 5-year NSF-funded project Project Goals  Develop open bioinformatics resources  Support functional analysis of social behavior  Initial prototype focused on honey bee research

University of Illinois at Urbana-Champaign What is BeeSpace?

University of Illinois at Urbana-Champaign BeeSpace Functional Concepts SPACESmerge, switch MAPStopic, cluster, ontology DOCUMENTSsummarize, annotate

University of Illinois at Urbana-Champaign What does BeeSpace do? Lets you search and navigate biology literature Conceptual navigation of semantic descriptions Presents diverse databases in a uniform space Enables hypothesis development and testing Goes beyond keyword search, to find functional descriptions from biology literature Automatic generation of gene descriptions

University of Illinois at Urbana-Champaign BeeSpace 4.0: New Features Single AJAX Window with Collapsible Panes Model: Folders, Lists, Messages Coordinated Levels of Resolution

University of Illinois at Urbana-Champaign How is BeeSpace licensed? Portions are GPL v2 Remainder is subject to negotiation

University of Illinois at Urbana-Champaign BeeSpace Development Small team of students and professionals 4 th year of full-time development Current version, 3.6, is available for demo Version 4.x scheduled for late 2008 release  New AJAX user interface using Ext JS v2.0  Switching from Java/JSF to Python/Django

University of Illinois at Urbana-Champaign Killer App: Gene Summarizer “Convert genes into abstracts”  Pass gene ID's and keywords to Summarizer  Queries large literature DB's (250GB+)‏  Returns highly relevant abstracts  Automatically generates descriptions of genes similar to those created by human curators

University of Illinois at Urbana-Champaign Research Value to Biologists The generated summaries are directly useful to biologists, and also serve as entry points to enable them to quickly navigate relevant literatures BeeSpace live prototype:

University of Illinois at Urbana-Champaign Publish BeeSpace as Web Service We’re committed to publishing all BeeSpace components as web services Gene Summarizer is first available service  Highly interoperable across platforms  Simple integration with existing software How simple, you ask?...

University of Illinois at Urbana-Champaign Really Simple GMOD Integration Change 1 line of code in “gbrowse_details” From: print $CONFIG->header || h1("$head_name Details"); To : print $CONFIG->header || h1(" $head_name Details");

University of Illinois at Urbana-Champaign What's Next for BeeSpace? BeeSpace v4.0  Streamlined AJAX web interface  Faster searching GMOD integration  More BeeSpace web service functionality

University of Illinois at Urbana-Champaign The Future: AJAX + Web Services AJAX consuming web services  Example: Google Maps Gaining popularity in industry Future of BeeSpace design?

University of Illinois at Urbana-Champaign Thank You