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SUMMARY:Estimating within-host viral genetic diversity from next-generatio
 n sequencing data - Beerenwinkel\, N (ETH Zurich)
DTSTART:20140325T110000Z
DTEND:20140325T114500Z
UID:TALK51607@talks.cam.ac.uk
CONTACT:Mustapha Amrani
DESCRIPTION:Next-generation sequencing allows for cost-effective probing o
 f pathogen populations at an unprecedented level of detail. The massively 
 parallel sequencing approach can detect low-frequency alleles and it provi
 des a snapshot of the structure of the entire population. However\, analyz
 ing ultra-deep sequencing data obtained from mixed samples is challenging\
 , because reads contain amplification and sequencing errors and the read l
 ength is typically shorter than the genomic region of interest. Thus\, ult
 ra-deep sequencing experiments provide only indirect evidence of the under
 lying population structure. We will present computational and statistical 
 methods for read error correction and haplotype reconstruction in intra-pa
 tient virus populations\, and show how to infer evolutionary parameters fr
 om these data.\n
LOCATION:Seminar Room 1\, Newton Institute
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