BIOINFORMATICS SEMINAR SERIES
California State University, San Bernardino
Summer 2007 Fellowship at the
Center for Bio-Image Informatics
University of California, Santa Barbara

11 January 2008
Fri, JB 389/391

10:00  10:30 am, SADOT  BANUET

TITLE  The Online Connection of Biological Databases
ABSTRACT
Bisquick is a biological image database that stores thousands of images 
from biological samples, developed by the bioinformatics center at UCSB. 
Researchers currently use the database for storage, manipulation, and 
analysis of image data sets. Our project goal is to expand the utility of 
the image database to link images, and image tags, seamlessly with 
numerous, powerful, existing scientific databases. In a single feature or 
tag-based query, the user can retrieve research-relevant information in 
multiple media forms, such as gene sequence, protein structure or primary 
literature, each parsed from independent sources.

10:30  11:00 am, STEVEN  M. PARKER

TITLE  Tools for Microtubule Dynamics Analysis I
ABSTRACT
The goal of the project is to build a graphical user interface that 
provides a biological user the tools necessary to perform semi-automated 
tracking of microtubule tip distances. We develop a faster and more 
accurate software comparing to currently used commercial software such as 
RTM software.

11:00  11:30 am, JOSE  FREIRE

TITLE  Evaluating the Performance of Microtubule Tracing and Retinal Layer
Image Segmentation Algorithms

ABSTRACT
Two evaluation methodologies are proposed. (1) Two measures to evaluate 
retinal layer segmentation (2) An overall evaluation metric for microtubule
tracing. In the retinal layer segmentation a weighted F-Measure is used to
account for layer segmentation error and Fast Marching is used to 
efficiently calculate distance errors. The overall evaluation metric for 
microtubule tracing takes into account tip distance, trace distance, and 
length differences.