Seminars & Events

Computation Institute 3-D Seminar
"Bridging Text with Biological Knowledge"

DATE: July 22, 2008
TIME: 11:00 am
SPEAKER: Sophia Ananiadou, National Centre for Text Mining, University of Manchester
LOCATION: Research Institute 480, University of Chicago
HOST: Andrey Rzhetsky

Description:
One of the bottlenecks of biological data integration is linking the plethora of available databases, ontologies, networks, pathways to evidence from the vast amount of scientific literature. Text mining provides such a link. Text mining techniques such as named entity recognition, event and relation extraction add layers of semantic annotation to documents thus linking text to biological knowledge. Examples of knowledge integration systems developed at the National Centre for Text Mining using text mining technology will be discussed: Facta (association mining), PathText (links signaling pathways with scientific literature) and KLEIO (semantic information retrieval system).

Bio-text mining applications such as biological information extraction, semantic searching of large document collections, enrichment of biological networks, etc., depend not only on the availability of text mining tools but also on resources. Resources such as terminologies and biologically annotated corpora provide the means of linking data with literature. Recent work on populating a BioLexicon with biological events will be presented.

Sophia Ananiadou is a Reader in Text Mining in the School of Computer Science at the University of Manchester and Director of the UK National Centre for Text Mining (NaCTeM). Her current research includes building bio-resources, annotated corpora, advanced IR systems, linking text to pathways, and text mining for systematic reviews. In 2004, she received the Daiwa Adrian prize for her research in Knowledge Mining for Biology, and in 2006 and 2007 she was awarded the IBM UIMA innovation award for her work on the interoperability of text-mining tools. She has authored more than 130 papers and in 2006 she was the editor of the first book on text mining for biology and biomedicine.

More Information:
Lunch will be provided after the talk
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