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SUMMARY:Genome-wide characteristics of sequence coverage by next-generatio
 n sequencing: how does this impact interpretation? - Taylor\, J (CSIRO)
DTSTART:20100716T093000Z
DTEND:20100716T100000Z
UID:TALK25508@talks.cam.ac.uk
CONTACT:Mustapha Amrani
DESCRIPTION:With a greatly increased capacity to generate sequence data fr
 om a sample comes unprecedented levels of resolution of the genome or tran
 scriptome under study. Interpretations derived from analysis of this seque
 nce data often hinge on a study of density or counts of sequence reads bei
 ng observed from a particular region of the genome or transcriptome either
  for purposes of comparison between samples or for a qualitative descripti
 on of which sequences are present in the sample under study. A challenging
  aspect of this sort of analysis is that sequence read density across the 
 genome has been observed to be highly variable within and between samples 
 and the sources of this variability are yet to be fully explained. This ta
 lk briefly explores examples of variability and some possible causes under
 lying a small number of these and how this understanding can be used to im
 prove interpretation. In particular\, we investigate the utility of an emp
 irically derived understanding of intra-genome k-mer uniqueness to inform 
 sequence read alignment and interpretation. We investigate the properties 
 of k-mers within a range of sequence datasets with respect to sequencing b
 ias\, functional annotation and interpretation of alignment outcomes.\n
LOCATION:Seminar Room 1\, Newton Institute
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