Using credibility intervals instead of hypothesis tests in SAGE analysis.
BACKGROUND
Statistical methods usually used to perform Serial Analysis of Gene Expression (SAGE) analysis are based on hypothesis testing. They answer the biologist's question: 'what are the genes with differential expression greater than r with P-value smaller than P?'. Another useful and not yet explored question is: 'what is the uncertainty in differential expression ratio of a gene?'.


RESULTS
We have used Bayesian model for SAGE differential gene expression ratios as a more informative alternative to hypothesis tests since it provides credibility intervals.


BACKGROUND
The model is implemented in R statistical language script and is available under GNU/GLP copyleft at supplemental web site.


BACKGROUND
http://www.ime.usp.br/~rvencio/SAGEci/
Vêncio
Ricardo Z N
RZ
Departamento de Estatística, Instituto de Matemática e Estatística da Universidade de São Paulo, São Paulo 04601-003, Brazil, Fundação Antônio Prudente, São Paulo 01509-900, Brazil. rvencio@ime.usp.br
Brentani
Helena
H
Pereira
Carlos A B
CA
D000465:Algorithms; D001943:Breast Neoplasms / Q000235:genetics; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D008957:Models, Genetic; D015233:Models, Statistical; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity; D017422:Sequence Analysis, DNA / Q000379:methods*