Abstract/Session Information for Program Number 212
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Session Information
Session Title: Plenary Session 3   Session Type: Plenary
Session Location: Royce Hall   Session Time: MON June 27, 2005 08:00PM - 11:00PM
Abstract Information
Program Number: 212   Presentation Time: 08:00PM
Keywords: KW36 - Genomics
Abstract Content
The C. elegans Localizome Project: a beginning. Denis Dupuy1, Nicolas Bertin1, Qianru Li1, Alain Carnec1, Jennifer Rosenberg1, Rock Pulak2, Jane Shingles3, John Reece-Hoyes3, Domena Tu4, David Lee4, Rebecca Newbury5, Ryan Viveiros5, William A. Mohler6, Ian A. Hope3, Don Moerman5, Robert Johnsen4, David Baillie4, Marc Vidal1. 1) Center for Cancer Systems Biology (CCSB)/Dana-Farber Cancer Institute/Harvard Medical school, Boston, MA; 2) Union Biometrica, Somerville, MA; 3) University of Leeds, Leeds, UK; 4) Department Molecular Biology and Biochemistry, Simon Fraser University, Vancouver, BC; 5) Department of Zoology, The University of British Columbia, BC; 6) Dept. of Genetics and Developmental Biology University of Connecticut Health Center, Farmington, CT.

   The field of systems biology attempts to provide a systems level understanding of biological processes by building descriptive and mechanistic models of biological phenomena. An important aspect of the complexity of metazoan organisms lies within the differential expression of the genes that drives cell diferentiation. The long-term goal of the C. elegans localizome is to generate a gene expression and protein localization map, for most genes, across development. We present solutions for the major challenges of a C. elegans proteome-wide localizome map. We generated a genome-wide resource of C. elegans promoters needed to generate transgenic animals expressing GFP. Version 1 of the worm promoterome is a resource of ~6,500 C. elegans promoters that can be transferred rapidly into various Multisite Gateway Destination vectors to drive expression of GFP, or other markers, either directly from promoters or in fusion with a protein-encoding ORFs. We will describe a new method that uses a nematode profiler/sorter system. This system allows the high-throughput mapping of gene expression patterns along the anterior-posterior axis of each animal. As thousands of animals from a mixed population of worms are analyzed, fluorescence traces can be arranged by size into Post-embryonic Developmental Expression Chronograms (PDECs). A PDEC provides a reconstituted "time-lapse" image of gene expression throughout larval to adult development across the length of the worm’s body. Although the spatial resolution of the PDEC is lower than that of traditional microscopic analyses, this data format allows automated comparison and clustering of expression patterns, while also giving access to a clear temporal context of gene expression. We acquired PDECs for over 1,500 GFP-strains generated mainly by the C. elegans Gene Expression Consortium and the Hope lab. We will discuss how these data can be used in combination with interactome, transcriptome and phenome datasets, and also how they compare to manual annotations performed through microscopic observation.
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