Ontology-based annotation of neurodegenerative disease phenotypes using the Neuroscience Information Framework

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ABSTRACT:

In this presentation, I will show how structured annotations of phenotypes created using community ontologies can be used to compare across animal models and human neurodegenerative disease. We have created a flexible template for creating multiscale phenotypes using the the Neuroscience Information Framework (NIF;  http://neuinfo.org) and the PATO ontologies. The basic model has been used to annotate phenotypes from published articles and has been incorporated into a set of web-based tools developed for annotation of very large multispectral imaging data sets available through the Cell Centered Database (http://ccdb.ucsd.edu). The goal is to establish tools and strategies that link phenotypes across anatomical scales and structures through the use of both reasoning and statistical measures.

SPEAKER BIO:
Maryann Martone received a B.A. from Wellesley College in biological psychology and Ancient Greek, and her Ph.D. in neuroscience in 1990 from the University of California, San Diego. Her thesis work on the neurochemical organization of the mammalian neostriatum was performed in the laboratory of Dr. Philip Groves. After receiving her degree, she joined the National Center for Microscopy and Imaging Research, then newly founded at the University of California, San Diego by Dr. Mark Ellisman. The National Center is an NIH-established research resource dedicated to the advancement of 3D multiscale imaging technologies for unraveling the molecular and structural complexity of the nervous system. She is currently the co-driector of the National Center and a Professor-in-Residence in the Department of Neuroscience at UCSD.
Although she continues to investigate the structure of the nervous system using light and electron microscopy, for the past several years, she has been involved in the creation neuroinformatics resources for neuroscience. Dr. Martone is the principal investigator of the Neuroinformatics Framework project, a national pilot project awarded by the NIH to establish a uniform resource description framework for neuroscience. She is the head of the Cell Centered Database project (www.ccdb.ucsd.edu), an on-line database for electron tomography and correlated light and electron microscopic data. Her recent work has focused on building ontologies for neuroscience to facilitate data exchange and integration, and integrating such ontologies into image analysis and data mining tools. She serves as the US scientific representative to the International Neuroinformatics Coordinating Facility (INCF). Within the INCF, she chairs the program on Ontologies for Neural Structures.  

 

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Date: Wednesday, February 16, 2011
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02/16/2011