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INDRA Discovery

Discrete GSEA
Signed GSEA
Continuous GSEA
Discrete MSEA
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Continuous Gene Set Analysis

This application performs GSEA on continuous data using INDRA CoGEx.

Minimum Evidence Count The minimum number of evidences, if using INDRA path-based analysis.

Minimum Belief The minimum belief score, if using INDRA path-based analysis.

Keep insignificant results (leads to long results lists)

Alpha The alpha is the threshold for significance in the Fisher's exact test with which multiple hypothesis testing correction will be executed.

Gene Set Source

Gene Ontology

Reactome

WikiPathways

HPO Phenotypes

INDRA Upstream

INDRA Downstream

The source of gene sets. Only one can be run at a time because this analyis is computationally intensive

File

Species

Human

Rat

Mouse

Permutations The number of permutations used with GSEA

Gene Name Column The name of the column containing gene names (HGNC symbols) in the uploaded file.

Ranking Metric Column The name of the column containing the ranking metric values in the uploaded file.

Developed by the Gyori Lab at Northeastern University.
INDRA CoGEx (Context Graph Extension) is an automatically assembled biomedical knowledge graph which integrates causal mechanisms from INDRA with non-causal contextual relations including properties, ontologies, and data.
INDRA CoGEx is funded by grant HR00112220036 under the DARPA ASKEM / ARPA-H BDF programs