ProbCD: enrichment analysis accounting for categorization uncertainty.

ABSTRACT:

Background

As in many other areas of science, systems biology makes extensive use of statistical association and significance estimates in contingency tables, a type of categorical data analysis known in this field as enrichment (also over-representation or enhancement) analysis. In spite of efforts to create probabilistic annotations, especially in the Gene Ontology context, or to deal with uncertainty in high throughput-based datasets, current enrichment methods largely ignore this probabilistic information since they are mainly based on variants of the Fisher Exact Test.

Results

We developed an open-source R-based software to deal with probabilistic categorical data analysis, ProbCD, that does not require a static contingency table. The contingency table for the enrichmen

SUBMITTER: Vencio RZ 

PROVIDER: S-EPMC2169266 | biostudies-literature | 2007 Oct

REPOSITORIES: biostudies-literature