A differentiation-based phylogeny of cancer subtypes Journal Article
| Authors: | Riester, M.; Attolini, C. S. O.; Downey, R. J.; Singer, S.; Michor, F. |
| Article Title: | A differentiation-based phylogeny of cancer subtypes |
| 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. © 2010 Riester et al. |
| Keywords: | controlled study; leukemia; human cell; validation process; cancer staging; breast cancer; gene expression profiling; cancer genetics; gene identification; intermethod comparison; tumor classification; mathematical computing; tissue differentiation; liposarcoma; genetic algorithm; phylogenetic tree |
| Journal Title: | PLoS Computational Biology |
| Volume: | 6 |
| Issue: | 5 |
| ISSN: | 1553-7358 |
| Publisher: | Public Library of Science |
| Date Published: | 2010-05-06 |
| Start Page: | e1000777 |
| Language: | English |
| DOI: | 10.1371/journal.pcbi.1000777 |
| PROVIDER: | scopus |
| PMCID: | PMC2865519 |
| PUBMED: | 20463876 |
| DOI/URL: | |
| Notes: | --- - "Export Date: 20 April 2011" - "Source: Scopus" |
Altmetric
Citation Impact
BMJ Impact Analytics
MSK Authors
Related MSK Work