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[vox] CVBIG Meeting Monday, May 20
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[vox] CVBIG Meeting Monday, May 20



The next CVBIG meeting will be held Monday, May 20 beginning at 5:30 PM
at Sagres Discovery (2795 Second Street suite 400). That's right before
and right around the corner from the next LUGOD meeting. Paul Thomas
will be speaking about protein ontology.

Speaker: Paul Thomas, Celera Genomics

Title: Panther: A System for Protein Functional Inference and
Classification

With the human genome now in hand, the role of protein sequence analysis
in biomedical research applications has dramatically changed. The
emphasis is no longer on rapid, cursory re-analysis of updated sequence
databases in search of novel proteins of known "druggable" protein
families or proteins related to known or putative protein therapeutics. 
Instead, the emphasis has shifted to obtaining more detailed protein
functional information, and large-scale classification of proteins into
"ontologies"that specify protein functions and interactions.  As a
result, next generation tools must be developed that meet these shifting
needs.

Celera's Panther system is both a simplified version of the publicly
available Gene Ontology, as well as a sophisticated system for assigning
proteins to the ontology based on sequence analysis.  The emphasis is
therefore not only on categorizing well-studied proteins, but on using
phylogenetic analysis to allow accurate inference of classifications for
novel proteins. Over 200,000 protein sequences have been used to build
over 2,000 phylogenetic (protein family) trees.  The trees have been
divided into subtrees by biologist curators such that each subtree
defines a subfamily of proteins having the same functions, resulting in
a library of over 40,000 Hidden Markov Models for functional
assignment.  Every family and
subfamily is named by a biologist curator and placed into molecular
function and
biological process ontology categories.

In this talk, I will discuss the Panther system and present a recent
assessment of its accuracy in classifying Drosophila gene products.


--
Eric Engelhard - www.cvbig.org
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