Statistical analysis of MPSS measurements: application to the study of LPS-activated macrophage gene expression.

ABSTRACT: Massively Parallel Signature Sequencing (MPSS), a recently developed high-throughput transcription profiling technology, has the ability to profile almost every transcript in a sample without requiring prior knowledge of the sequence of the transcribed genes. As is the case with DNA microarrays, effective data analysis depends crucially on understanding how noise affects measurements. We analyze the sources of noise in MPSS and present a quantitative model describing the variability between replicate MPSS assays. We use this model to construct statistical hypotheses that test whether an observed change in gene expression in a pair-wise comparison is significant. This analysis is then extended to the determination of the significance of changes in expression levels measured over the course

SUBMITTER: Stolovitzky GA 

PROVIDER: S-EPMC547838 | biostudies-literature | 2005 Feb

REPOSITORIES: biostudies-literature