Satellite meeting for Literature related issues

Topics

Different web tools allow researchers to search literature databases and integrate semantic information extracted from text with external databases and ontologies. Some of them even provide accessible APIs so users can build their own text mining pipelines.

Enhanced literature search and retrieval engines

 http://www.knewco.com/

[http//www.gopubmed.com/]

[http//www.novoseek.com/]

 http://www.ihop-net.org/UniPub/iHOP/

 http://www.ebi.ac.uk/citexplore/

 EBI text mining tools

Text mining web services

 BioAID workflows

 iHOP webservices]

 Whatizit

 http://www.biosemantics.org

The questions that this satellite meeting could try to answer are:

For developers:

• What are the missing elements for better integration of the different services?

• Which are the best formats for information extraction data exchange (ieXML, RDF)?

• Which components of the text minig architecture can be moved from to the server to the client (AJAX, browser plugins)?

For users:

• What is the actual utility of text mining in the workflows of the various communities of potential users—model organism database curators, bedside clinicians, biologists utilizing high-throughput experimental assays, hospital billing departments?

• How usable are biomedical text mining applications? How does the application fit into the workflow of a complex bioinformatics pipeline? What kind of training does a bioscientist require to be able to use an application?

• How robust and reliable are biomedical text mining applications?

• Is it possible to build portable text mining systems? Can systems be adapted to specific domains and specific tasks without the assistance of an experienced language processing specialist?

Chairperson

• Alberto Labarga

Targets

• Developers of literature and text mining related software and services
• End-users of these services

Date

• 2009/3/17 10:00-14:00

Room

• Seminar Room (1F)

Presentations

• Alberto Labarga
  • Review of text mining tools and web services
  • Attachments (coming soon)

Notes

Results

TODOs