Kevin W. Eliceiri

Director
Laboratory for Optical and Computational Instrumentation
University of Wisconsin at Madison


Biography:
Kevin Eliceiri received his undergraduate and graduate training in Microbiology and Biotechnology at the University of Wisconsin in Madison. He worked in Professor John White's laboratory developing imaging approaches for the model nematode C. elegans. He received further post-graduate training at the National Integrated Microscopy Resource (Madison, Wisconsin) in the area of computer science and microscopy. Since 2000 he has been at the Laboratory for Optical and Computational Instrumentation (LOCI, link to www.loci.wisc.edu) at the University of Wisconsin at Madison. He is currently director of the LOCI and a Principal Investigator in the Laboratory of Molecular Biology at the University of Wisconsin in Madison Graduate School. His current research focuses on the development of novel optical imaging methods for investigating cell signaling and cancer progression, and the development of software for multidimensional image analysis. He is a co-leader along with Ilya Goldberg and Jason Swedlow of the Open Microscopy Environment (link to www.openmicroscopy.org).

Talk Title:Image Informatics for Multidimensional Light Microscopy

Abstract: We are developing a complete, open source system for handling biomedical images, including image acquisition, data storage, metadata (experimental data associated with an image), visualization, analysis, annotation, and database interconnectivity. The software makes extensive use of several established open source systems for handling images: the Open Microscopy Environment (OME; image database), VisAD (image visualization), and ImageJ (image processing). We have also developed an open file format called OME-TIFF: fully compatible multi-page TIFF with rich metadata embedded in OME-XML format, the OME standard. Other major components of the software include: Bio-Formats, a Java library for reading and writing dozens of common microscopy file formats, including processing and conversion of metadata into OME-TIFF format; VisBio, a biological visualization tool for facilitating visualization and analysis of complex multidimensional image data; an OME plugin for ImageJ for transf erring images between ImageJ and an OME database; and a multidimensional Data Browser plugin for ImageJ to enable more effective visualization of 5D image data within ImageJ. We are working to integrate these packages into a cohesive whole to provide microscopists with a complete toolset for overcoming the challenges of working with digital multidimensional images.