POEAS

POEAS performs phenomic enrichment analysis of gene lists using the Plant Ontology (PO) to identify enriched anatomical, morphological, and developmental traits from genomic or proteomic experiments.

Key Features:

• Enrichment Analysis: Uses PO annotations to report enrichment for cellular components, molecular functions, biological processes, and phenotypic characteristics for input gene lists.
• Visualization Utilities: Produces detailed enrichment tables and publication-ready ontological graphs that represent enriched PO terms.
• Interactive Options: Allows specification of background population sets and selection among multiple-testing correction methods, different enrichment calculation methodologies, and resampling tests.
• Complementary Resource: Provides PO-based phenomic enrichment that complements Gene Ontology (GO) and other ontology-based analyses for plant genes.

Scientific Applications:

• Phenomic enrichment of gene lists: Analysis of gene lists derived from large-scale genomic or proteomic experiments to detect overrepresented PO terms.
• Characterization of plant traits: Identification of enriched anatomical, morphological, and developmental stage terms associated with gene sets.
• Ontology-based comparative analysis: Complementation of GO-based functional analyses by adding plant-specific phenotype and anatomy context via PO.

Methodology:

Performs enrichment analysis using Ontologizer 2.0; supports user-defined background populations, multiple-testing correction methods, alternative enrichment calculation methodologies, and resampling tests; accepts gene lists from large-scale genomic or proteomic experiments and outputs detailed enrichment tables and ontological graph visualizations.