Data Science Invited Talk Series
Speaker: Kimberly Van Auken, Database Curator – WormBase and Gene Ontology Consortium
Where: Lindley Hall, Room 102
When: Friday - November 3, 2017 1:30 PM
Webinar Link: https://iu.zoom.us/j/149995508
Topic: Data Curation in the Biomedical Sciences: from Text to Databases to Knowledge Discovery
Abstract: Knowledge discovery in the biomedical sciences depends on accurate, consistent representation of data in knowledgebases. Over the past two decades, the biocuration community, including the Model Organism Databases (MODs) and the Gene Ontology Consortium (GOC) (http://geneontology.org/), have been at the forefront of biological knowledge management. The vast and rapidly increasing amount of biomedical data, however, makes biocuration a very challenging task. In my talk, I’ll discuss methods we’ve employed at WormBase (https://wormbase.org) and the GOC to help meet these challenges, with specific emphasis on the use of: 1) text mining tools, such as Textpresso (http://textpresso.org/), to identify suitable papers and evidence sentences for curation, 2) controlled vocabularies and ontologies to model biological data, and 3) data capture, visualization, and analysis tools to engage users and foster knowledge discovery.
Bio: Kimberly Van Auken, Ph.D. is a Database Curator for WormBase, the online database housing the genetics, genomics and biology of Caenorhabditis elegans and other nematodes. She serves as an ontology editor and co-manager of the Annotation Working Group for the Gene Ontology Consortium and is a member of the editorial board for ‘Database: The Journal of Biological Databases and Curation’. She holds a B.S. in Biochemistry from the University of Rochester, Rochester, NY and a Ph.D. in Molecular, Cellular, and Developmental Biology from the University of Colorado, Boulder.