CAMERA enrichment analysis results

Results from Correlation Adjusted MEan RAnk (CAMERA) enrichment analysis applied to differential analysis results across tissues and molecular modalities. These results are generated using the run_cameraPR wrapper, which performs pre-ranked CAMERA testing on z-statistics derived from differential analyses.

CAMERA enrichment accounts for inter-gene correlation and provides a competitive test of whether molecular signatures show coordinated up- or down-regulation relative to the background.

Usage

CAMERA_RESULTS

Format

An object of class data.frame with the following columns:

tissue

factor; the tissue in which the enrichment was tested.

assay

factor; the molecular assay or omics layer.

contrast_type

factor; the type of contrast (e.g., acute, chronic, sex-stratified).

contrast

factor; the specific contrast tested.

contrast_short

factor; abbreviated contrast label.

collection

factor; the molecular signature collection.

database

factor; the source database for the molecular signature (e.g., Reactome, GO, KEGG).

set_id

character; unique identifier for the molecular signature.

set

character; full molecular signature or pathway name.

set_short

character; shortened or standardized pathway name.

set_size

integer; number of molecules from the set present in the differential analysis results.

set_size_DB

integer; total number of molecules in the set as defined in the source database.

size_ratio

numeric; ratio of set_size to set_size_DB, providing a measure of set coverage.

direction

factor; direction of enrichment, either "Up" or "Down".

t

numeric; two-sample t-statistic from CAMERA.

df

integer; degrees of freedom.

z.std

numeric; standard Normal equivalent of the test statistic.

p_value

numeric; two-sided p-value.

adj_p_value

numeric; BH-adjusted p-value, adjusted within tissue, assay, contrast, and collection.

Details

CAMERA_RESULTS summarizes pathway-level enrichment patterns across tissues, assays, and experimental contrasts. These results are typically used for downstream visualization (e.g., enrichment heatmaps), cluster annotation, and integrative interpretation alongside MOLECULAR_SIGNATURES and SET_TO_ID.

See also

run_cameraPR, MOLECULAR_SIGNATURES, SET_TO_ID