Document Detail


Estimation of rearrangement phylogeny for cancer genomes.
MedLine Citation:
PMID:  21994251     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Cancer genomes are complex, carrying thousands of somatic mutations including base substitutions, insertions and deletions, rearrangements, and copy number changes that have been acquired over decades. Recently, technologies have been introduced that allow generation of high-resolution, comprehensive catalogs of somatic alterations in cancer genomes. However, analyses of these data sets generally do not indicate the order in which mutations have occurred, or the resulting karyotype. Here, we introduce a mathematical framework that begins to address this problem. By using samples with accurate data sets, we can reconstruct relatively complex temporal sequences of rearrangements and provide an assembly of genomic segments into digital karyotypes. For cancer genes mutated in rearranged regions, this information can provide a chronological examination of the selective events that have taken place.
Authors:
Chris D Greenman; Erin D Pleasance; Scott Newman; Fengtang Yang; Beiyuan Fu; Serena Nik-Zainal; David Jones; King Wai Lau; Nigel Carter; Paul A W Edwards; P Andrew Futreal; Michael R Stratton; Peter J Campbell
Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2011-10-12
Journal Detail:
Title:  Genome research     Volume:  22     ISSN:  1549-5469     ISO Abbreviation:  Genome Res.     Publication Date:  2012 Feb 
Date Detail:
Created Date:  2012-02-03     Completed Date:  2012-06-13     Revised Date:  2014-02-24    
Medline Journal Info:
Nlm Unique ID:  9518021     Medline TA:  Genome Res     Country:  United States    
Other Details:
Languages:  eng     Pagination:  346-61     Citation Subset:  IM    
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MeSH Terms
Descriptor/Qualifier:
Computational Biology / methods
DNA Copy Number Variations
Evolution, Molecular
Genome, Human*
Humans
Models, Genetic*
Mutation
Neoplasms / genetics*
Phylogeny*
Translocation, Genetic*
Grant Support
ID/Acronym/Agency:
088340//Wellcome Trust; //Medical Research Council; //Wellcome Trust
Comments/Corrections

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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