A differentiation-based phylogeny of cancer subtypes Academic Article uri icon

Overview

MeSH Major

  • Algorithms
  • Computational Biology
  • Neoplasms

abstract

  • Histopathological classification of human tumors relies in part on the degree of differentiation of the tumor sample. To date, there is no objective systematic method to categorize tumor subtypes by maturation. In this paper, we introduce a novel computational algorithm to rank tumor subtypes according to the dissimilarity of their gene expression from that of stem cells and fully differentiated tissue, and thereby construct a phylogenetic tree of cancer. We validate our methodology with expression data of leukemia, breast cancer and liposarcoma subtypes and then apply it to a broader group of sarcomas. This ranking of tumor subtypes resulting from the application of our methodology allows the identification of genes correlated with differentiation and may help to identify novel therapeutic targets. Our algorithm represents the first phylogeny-based tool to analyze the differentiation status of human tumors.

publication date

  • May 2010

Research

keywords

  • Academic Article

Identity

Language

  • eng

PubMed Central ID

  • PMC2865519

Digital Object Identifier (DOI)

  • 10.1371/journal.pcbi.1000777

PubMed ID

  • 20463876

Additional Document Info

start page

  • e1000777

volume

  • 6

number

  • 5