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Colloquium - Myers

Whole Genome Sequencing and Imaging-Based Systems Biology
University of California, Berkeley

The whole-genome shotgun sequencing method with paired end-reads has proven rapid and economical, producing high-quality reconstructions of Drosophila (2000), Human (2001) and Mouse (2001), in quick succession. We discuss the overall algorithmic strategy, and the results one can expect by comparing the whole genome assembly of Drosophila against the recently finished sequence.

Because the finishing phase of genome assembly is an order of magnitude more expensive then the shotgun phase, most genomes being sequenced today will never be finished. This makes the goal of building better whole genome assemblers more important than ever. We present a new string-graph approach and several other improvements, giving preliminary results. We also discuss recent advances in sequencing technology.

We conclude with a segment on the possibility of a program of high-throughput in-situ image analysis in D. melanogaster and C. elegans embryos. We describe preliminary results on limited data sets and extrapolate on what we might be able to infer from such data. We speculate that this may be the best way to understand the developmental cis-regulatory network of the genome from a systems perspective.

This talk will be held in the Norlin Library British and Irish Studies Room.
Myers will also present a Mervyn Young Memorial Lecture later in the day.

Department of Computer Science
University of Colorado Boulder
Boulder, CO 80309-0430 USA
May 5, 2012 (14:13)