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

摘要: Massively Parallel Signature Sequencing (MPSS), a recently developed high-throughput transcription profiling technology, has the ability to profile almost every transcript in sample without requiring prior knowledge of sequence transcribed genes. As is case with DNA microarrays, effective data analysis depends crucially on understanding how noise affects measurements. We analyze sources MPSS and present quantitative model describing variability between replicate assays. use this construct statistical hypotheses that test whether an observed change gene expression pair-wise comparison significant. This then extended determination significance changes levels measured over course time series apply these analytic techniques study measurements LPS-stimulated macrophages. To evaluate our metrics, we compare results published macrophage activation by using Affymetrix GeneChips.