Computer program for the analysis of mutational spectra: Application to p53 mutations

Neal F. Cariello, Walter W Piegorsch, W. Thomas Adams, Thomas R. Skopek

Research output: Contribution to journalArticle

205 Citations (Scopus)

Abstract

Mutations in the p53 oncogene are extremely common in human cancers, and environmental exposure to mutagenic agents may play a role in the frequency and nature of the mutations. Differences in the patterns of p53 mutations have been observed for different tumor types. It is not trivial to determine if the differences observed in two mutational spectra are statistically significant. To this end, we present a computer program for comparison of two mutational spectra. The program runs on IBM-compatible personal computers and is freely available. The input for the program is a text file containing the number and nature of mutations observed in the two spectra. The output of the program is a P value, which indicates the probability that the two spectra are drawn from the same population. To demonstrate the program, the mutational spectra of single base substitutions in the p53 gene are compared in (i) bladder cancers from smokers and non-smokers, (ii) small-cell lung cancers, non-small-cell lung cancers and colon cancers and (iii) hepatocellular carcinomas from high- and low-aflatoxin exposure groups. p53 mutations differ in several important aspects from a typical mutational spectra experiment, where a homogeneous population of cells is treated with a specific mutagen and mutations at a specific locus are recovered by phenotypic selection. The means by which p53 mutations are recognized is by the appearance of a cancer, and this phenotype is very complex and varied.

Original languageEnglish (US)
Pages (from-to)2281-2285
Number of pages5
JournalCarcinogenesis
Volume15
Issue number10
StatePublished - Oct 1994
Externally publishedYes

Fingerprint

Aflatoxins
Computer program listings
Spectrum Analysis
Mutation
Software
Cells
Mutagens
Cancer
Personal computers
Colonic Neoplasms
Tumors
Substitution reactions
Genes
Small Cell Lung Cancer
Neoplasms
Bladder Cancer
p53 Genes
Small Cell Lung Carcinoma
Environmental Exposure
Microcomputers

ASJC Scopus subject areas

  • Cancer Research
  • Statistics, Probability and Uncertainty
  • Applied Mathematics
  • Physiology (medical)
  • Physiology
  • Behavioral Neuroscience

Cite this

Cariello, N. F., Piegorsch, W. W., Adams, W. T., & Skopek, T. R. (1994). Computer program for the analysis of mutational spectra: Application to p53 mutations. Carcinogenesis, 15(10), 2281-2285.

Computer program for the analysis of mutational spectra : Application to p53 mutations. / Cariello, Neal F.; Piegorsch, Walter W; Adams, W. Thomas; Skopek, Thomas R.

In: Carcinogenesis, Vol. 15, No. 10, 10.1994, p. 2281-2285.

Research output: Contribution to journalArticle

Cariello, NF, Piegorsch, WW, Adams, WT & Skopek, TR 1994, 'Computer program for the analysis of mutational spectra: Application to p53 mutations', Carcinogenesis, vol. 15, no. 10, pp. 2281-2285.
Cariello, Neal F. ; Piegorsch, Walter W ; Adams, W. Thomas ; Skopek, Thomas R. / Computer program for the analysis of mutational spectra : Application to p53 mutations. In: Carcinogenesis. 1994 ; Vol. 15, No. 10. pp. 2281-2285.
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