PUMA
Istituto di Scienza e Tecnologie dell'Informazione     
Muino J. M., Kuruoglu E. E., Arndt P. F. Evidence of a cancer type-specific distribution for consecutive somatic mutation distances. In: Computational Biology and Chemistry, vol. 53 (Part A) pp. 79 - 83. Special issue: Complexity in Genomes. Yannis Almirantis, Peter Arndt, Wentian Li, Astero Provata (eds.). Elsevier, 2014.
 
 
Abstract
(English)
Specific molecular mechanisms may affect the pattern of mutation in particular regions, and therefore leaving a footprint or signature in the DNA of their activity. The common approach to identify these signatures is studying the frequency of substitutions. However, such an analysis ignores the important spatial information, which is important with regards to the mutation occurrence statistics. In this work, we propose that the study of the distribution of distances between consecutive mutations along the DNA molecule can provide information about the types of somatic mutational processes. In particular, we have found that specific cancer types show a power-law in interoccurrence distances, instead of the expected exponential distribution dictated with the Poisson assumption commonly made in the literature. Cancer genomes exhibiting power-law interoccurrence distances were enriched in cancer types where the main mutational process is described to be the activity of the APOBEC protein family, which produces a particular pattern of mutations called Kataegis. Therefore, the observation of a power-law in interoccurence distances could be used to identify cancer genomes with Kataegis.
URL: http://www.sciencedirect.com/science/article/pii/S1476927114000917
DOI: 10.1016/j.compbiolchem.2014.08.012
Subject Mutation distribution
Poisson distribution
Power law
Cancer genome
Kataegis
J.3 LIFE AND MEDICAL SCIENCES. Biology and genetics
G.3 PROBABILITY AND STATISTICS. Renewal theory
G.3 PROBABILITY AND STATISTICS. Distribution functions
92D15 Problems related to evolution
92D20 Protein sequences, DNA sequences
60K20 Applications of Markov renewal processes


Icona documento 1) Download Document PDF


Icona documento Open access Icona documento Restricted Icona documento Private

 


Per ulteriori informazioni, contattare: Librarian http://puma.isti.cnr.it

Valid HTML 4.0 Transitional