Accounting for extra-binomial variability with differentially expressed genetic pathway data: a collaborative bioinformatic study.

ABSTRACT: We describe a collaborative project involving faculty and students in a university bioinformatics/biostatistics center. The project focuses on identification of differentially expressed gene sets ("pathways") in subjects expressing a disease state, medical intervention, or other distinguishable condition. The key feature of the endeavor is the data structure presented to the team: a single cohort of subjects with two samples taken from each subject - one for each of two differing conditions without replication. This particular structure leads to essentially a cohort of 2×2 contingency tables, where each table compares the differential gene state with the pathway condition. Recognizing that correlations both within and between pathway responses can disrupt standard 2×2 table analytics, we d

SUBMITTER: Aberasturi DT 

PROVIDER: S-EPMC10601968 | biostudies-literature | 2023 Jan-Dec

REPOSITORIES: biostudies-literature