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SUMMARY:Inferring Cancer Evolution - Florian Markowetz\, Cambridge Univers
 ity\, Cancer Research UK Cambridge Institute
DTSTART:20150430T133000Z
DTEND:20150430T143000Z
UID:TALK59033@talks.cam.ac.uk
CONTACT:Prof. Ramji Venkataramanan
DESCRIPTION:Cancer has long been understood as a somatic evolutionary proc
 ess\, but many details of tumor progression remain elusive. Here\, I will 
 talk about computational methods to infer evolutionary pathways leading to
  tumour heterogeneity. I will start by discussing how to quantify intra-pa
 tient heterogeneity by rigorous analysis of copy-number profiles from mult
 iple patient samples [1]. Using a study in ovarian cancer I will describe 
 how summary statistics of phylogenetic quantification of genetic heterogen
 eity can predict patient survival [2]. Then\, I will present a probabilist
 ic framework to reconstruct intra-tumor evolution from data obtained by bu
 lk bisulfite sequencing of mixed tumor samples or single cell genomes. Our
  approach jointly estimates the number and composition of clones in the sa
 mple as well as the most likely tree connecting them [3]. I will finish wi
 th an outlook how to put cancer genomics in a tissue context [4\,5].\n \nR
 eferences:\n \n[1] R.F. Schwarz et al\, Phylogenetic quantification of int
 ra-tumour heterogeneity\, PLoS Comp Bio 10(4) 2014\n \n[2] R.F. Schwarz et
  al\, Spatial and temporal heterogeneity in high-grade serous ovarian canc
 er: a phylogenetic reconstruction\, PLoS Medicine\, 2015 Feb 24\;12(2):e10
 01789.\n \n[3] Yuan et al\, BitPhylogeny: A probabilistic framework for re
 constructing intra-tumor phylogenies\, Genome Biology\, 2015\, 16:36\n \n[
 4] Yuan et al\, Quantitative image analysis of cellular heterogeneity in b
 reast tumors complements genomic profiling Science Translational Medicine\
 , 4\, 157ra142 (2012)\n \n[5] Martins et al\, Combined image and genomic a
 nalysis of high-grade serous ovarian cancer reveals PTEN loss as a common 
 driver event and prognostic classifier Genome Biology\, 2014\, 15:526\n\n*
 BIO*: Florian Markowetz holds degrees in Mathematics and Philosophy from U
 niversity of Heidelberg and a PhD in Computational Biology from Free Unive
 rsity Berlin. He was affiliated with the German Cancer Research Center (DK
 FZ) in Heidelberg and the Max Planck Institute for Molecular Genetics in B
 erlin. His PhD thesis was honored by the Max Planck Society with an Otto-H
 ahn medal. He pursued post-doctoral research at Princeton University at th
 e Lewis-Sigler Institute for Integrative Genomics. He became a junior grou
 p leader at Cancer Research UK's Cambridge Research Institute in 2009 and 
 was promoted to senior group leader in 2014. \n 
LOCATION:LR3B\, Department of Engineering
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