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SUMMARY:De novo assembly of next-generation sequencing technologies using 
 de Bruijn graphs - Daniel Zerbino
DTSTART:20081023T121000Z
DTEND:20081023T124500Z
UID:TALK14068@talks.cam.ac.uk
CONTACT:Dr James Kirkbride
DESCRIPTION:Next-generation sequencing technologies are currently bringing
  about a revolution in the way genomic sequencing is used in biology. Than
 ks to this tremendous reduction in costs\, many DNA-based assays are now w
 ithin reach of even modest research groups\, and new ones are being quickl
 y developed. \n\nHowever\, these technologies have the drawback of reading
  only very short fragments. These 'reads' can easily be mapped onto a know
 n reference genome\, but are much more difficult to handle in the case of 
 unstudied species.\n\nI will be presenting Velvet\, a software package whi
 ch allows users to reconstruct\, or assemble\, new genomes using these ver
 y short reads only. I will describe the theory behind Velvet\, and especia
 lly its data structure\, the de Bruijn graph. This kind of graph has is no
 t only very useful in genome assembly\, but also in analysing large scale 
 rearrangements in the genome.
LOCATION:Entertaining Room\, Darwin College
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